US20190032020A1 - Differentiation of pluripotent stem cells to form renal organoids - Google Patents

Differentiation of pluripotent stem cells to form renal organoids Download PDF

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US20190032020A1
US20190032020A1 US15/536,018 US201515536018A US2019032020A1 US 20190032020 A1 US20190032020 A1 US 20190032020A1 US 201515536018 A US201515536018 A US 201515536018A US 2019032020 A1 US2019032020 A1 US 2019032020A1
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Minoru TAKASATO
Melissa Little
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University of Queensland UQ
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Definitions

  • THIS INVENTION relates to kidney development. More particularly, this invention relates to an in vitro method of producing renal organoids comprising nephrons and/or ureteric bud and/or progenitors of these, which are at least partly vascularized and contain a renal interstitial compartment.
  • the kidney is a mesodermal organ that differentiates from the intermediate mesoderm (IM) via the formation of a ureteric bud (UB) and the interaction between this bud and the adjacent IM-derived metanephric mesenchyme (MM).
  • IM intermediate mesoderm
  • UB ureteric bud
  • MM metanephric mesenchyme
  • the nephrons arise from a nephron progenitor population derived from the MM.
  • Other progenitors within the IM or MM are regarded as contributing to the renal stroma/interstitium and components of the renal vasculature, including the glomerular capillaries.
  • the IM itself is derived from the posterior primitive streak. While the developmental origin of the kidney is well understood, nephron formation in the human kidney is completed before birth 5 . Hence, there is no postnatal stem cell able to replace lost nephrons.
  • Human Pluripotent Stem cells have great potential for the generation of a cell-based treatment for kidney disease.
  • the realisation of human pluripotent stem cells as a source of cells for clinical use and as a treatment, such as for kidney disease has been hindered by the lack of understanding of how to produce the necessary cell types that give rise to nephrons and other structures of the kidney.
  • the present inventors have successfully directed the differentiation of human pluripotential stem cells through posterior primitive streak and intermediate mesoderm (IM) under fully chemically defined monolayer culture conditions using growth factors used during normal embryogenesis.
  • This differentiation protocol results in the synchronous induction of ureteric bud (UB) and metanephric mesenchyme (MM) that forms a self-organising structure, including nephron formation and segmentation to form distal tubule, proximal tubule and Bowman's capsule, in vitro.
  • Organoids also contain mesenchyme-derived kidney stroma.
  • Such hESC-derived components show broad renal potential ex vivo, illustrating the potential for pluripotent stem cell-based renal regeneration.
  • the inventors have directed the differentiation of vasculature within kidney organoids comprising differentiated ureteric bud (UB), metanephric mesenchyme (MM) and MM-derived nephrons and stroma.
  • the invention provides generation of aggregated nephron progenitor cells and ureteric epithelial progenitor cells that form renal organoids in a shortened culture period. More particularly, the invention provides a method for directing human pluripotent stem cells to form a complex multicellular kidney organoid that comprises fully segmented nephrons surrounded by endothelia and renal interstitium and is transcriptionally similar to a human fetal kidney.
  • one aspect of the invention provides a method of producing nephron progenitor cells and ureteric epithelial progenitor cells, said method including the step of contacting intermediate mesoderm (IM) cells with: fibroblast growth factor 9 (FGF 9 ) and/or fibroblast growth factor 20 (FGF 20 ) and/or fibroblast growth factor 2 (FGF 2 ); and optionally, one or more agents selected from the group consisting of: bone morphogenic protein 7 (BMP 7 ); heparin; a Wnt agonist; retinoic acid (RA), analog or agonist; and an RA antagonist; to thereby produce nephron progenitor cells and ureteric epithelial progenitor cells from the IM cells, under conditions that induce or promote aggregation of nephron progenitor cells and ureteric epithelial progenitor cells into one or more renal organoids whereby the renal organoids are at least partly vascularized and/or comprise vascular
  • At least partial vascularization and/or the presence of vascular progenitor cells is facilitated by conditions that promote or direct development of vascular endothelium or vascular progenitors from mesenchyme cells or tissues.
  • vascularization of the renal organoid is facilitated by inclusion of one or more human pluripotent stem cells and/or vascular endothelial progenitors differentiated therefrom.
  • vascularization of the renal organoid is facilitated by use of a suitable oxygen tension that facilitates vascularization.
  • the IM cells are derived or differentiated from posterior primitive streak cells.
  • the posterior primitive streak cells are derived or differentiated from human pluripotent stem cells (hPSCs).
  • hPSCs include human embryonic stem cells (hESCs) and induced human pluripotent stem cells (iPSCs).
  • a related aspect of the invention provides a method of producing mesoderm cells, said method including the steps of contacting hPSCs with a Wnt agonist to thereby produce mesoderm cells.
  • the mesoderm cells may be a mixed population of mesodermal cells such as definitive mesoderm and intermediate mesoderm (IM) including rostral IM and/or caudal IM.
  • the method may further include the subsequent step of contacting the definitive mesoderm cells with fibroblast growth factor 9 (FGF 9 ) and/or fibroblast growth factor 20 (FGF 20 ) and/or fibroblast growth factor 2 (FGF 2 ).
  • the subsequent step of contacting the definitive mesoderm cells with fibroblast growth factor 9 (FGF 9 ) and/or fibroblast growth factor 20 (FGF 20 ) and/or fibroblast growth factor 2 (FGF 2 ) step facilitates the formation of intermediate mesoderm (IM) which subsequently gives rise to the differentiation of both ureteric epithelium and nephron progenitor cells from the IM cells.
  • IM intermediate mesoderm
  • the method further includes the subsequent step of dissociating and reaggregating the cells into a pellet for culture in the presence of FGF 2 , FGF 9 and/or FGF 20 .
  • this step facilitates the production of renal organoids comprising nephrons.
  • the culture in the presence of FGF 2 , FGF 9 and/or FGF 20 may be performed on a floating filter at an air/media interface.
  • the method further includes the addition of a Wnt agonist prior to removal of FGF 2 , FGF 9 and/or FGF 20 and subsequent culture without growth factors. This step further facilitates the formation of nephrons within renal organoids.
  • the Wnt agonist is at relatively high concentration for a relatively short period of time (e.g 30-60 minutes)
  • culturing cells in the presence of the Wnt agonist, fibroblast growth factor 9 (FGF 9 ) and/or fibroblast growth factor 20 (FGF 20 ) and/or fibroblast growth factor 2 (FGF 2 ) in any of the aforementioned steps may further include one or more of: a retinoic acid (RA) antagonist, RA or RA agonist, bone morphogenic protein 7 (BMP 7 ); and/or retinoic acid.
  • RA retinoic acid
  • BMP 7 bone morphogenic protein 7
  • the renal organoids are at least partly vascularized.
  • the renal organoid comprises segmented nephrons surrounded by endothelia, perivascular cells and renal interstitium.
  • vascularization of the kidney organoid is facilitated by inclusion of one or more human pluripotent stem cells and/or vascular endothelial progenitors differentiated therefrom.
  • vascularization of the kidney organoid is facilitated by use of a suitable oxygen tension that facilitates vascularization.
  • the method further includes the step of identifying viable nephron progenitor cells and/or ureteric epithelial progenitor cells.
  • identification of viable nephron progenitor cells and/or ureteric epithelial progenitor cells includes measurement or detection of co-expression of a plurality of nucleic acids and/or proteins as markers for the viable nephron and/or ureteric epithelial progenitor cells.
  • the invention provides isolated, enriched or purified nephron and/or ureteric epithelial progenitor cells and/or a renal organoid produced according to the method of the aforementioned aspect.
  • the renal organoid comprises segmented nephrons surrounded by endothelia and renal interstitium.
  • the invention provides a method of producing a kidney, or kidney cells or tissues, said method including the step of differentiating kidney, or kidney cells or tissues from the nephron progenitor cells and/or ureteric epithelial progenitor cells and/or the renal organoid of the aforementioned aspects to thereby produce the kidney, or kidney cells or tissues.
  • the nephron progenitor cells and/or ureteric epithelial progenitor cells and/or the renal organoid tnay he used for the recellularisation of whole organ decellularised kidney to thereby create a reconstituted or replacement kidney.
  • the nephron progenitor cells and/or ureteric epithelial progenitor cells and/or the renal organoid may be used as a source for cellular therapy of kidney diseases and conditions.
  • the nephron progenitor cells and/or ureteric epithelial progenitor cells and/or renal organoids may be used as a source of cells or tissues for bioprinting or bio-engineering whole kidneys, kidney cells and/or tissues for kidney transplant or treating chronic kidney damage or disease.
  • a particular aspect provides a method of bioprinting a renal structure, said method including depositing a plurality of hPSCs or other progenitor cells disclosed herein to form a renal structure having one or more functional characteristics of a kidney or component thereof, or which is capable of developing one or more functional characteristics of a kidney or component thereof.
  • the renal structure is at least partly vascularized and/or comprises vascular progenitor cells.
  • the hPSCs or other progenitor cells are subjected to a method disclosed herein for producing nephron progenitor cells and ureteric epithelial progenitor cells in the three-dimensional structure.
  • This particular aspect also provides a bioprinted, renal structure having one or more functional characteristics of a kidney or component thereof, or which is capable of developing one or more functional characteristics of a kidney or component thereof, produced by the aforementioned method.
  • Another particular aspect provides a method of bioprinting a renal structure, said method including depositing a plurality of nephron progenitor cells and ureteric epithelial progenitor cells disclosed herein to form a renal structure having one or more functional characteristics of a kidney or component thereof, or which is capable of developing one or more functional characteristics of a kidney or component thereof.
  • the bioprinted renal structure is at least partly vascularized and/or comprises vascular progenitor cells.
  • the nephron progenitor cells and ureteric epithelial progenitor cells have been produced from hPSCs by a method disclosed herein.
  • This particular aspect also provides a bioprinted renal structure having one or more functional characteristics of a kidney or component thereof, or which is capable of developing one or more functional characteristics of a kidney or component thereof, produced by the aforementioned method.
  • Another aspect of the invention provides an array of nephron progenitors and ureteric progenitors having a planar geometry.
  • the array may comprise 2-15 or more stacked arrays.
  • the arrays may stacked in a tessellated pattern.
  • a related aspect of the invention provides a renal organoid obtained by maturing or differentiating the array, or cells therein, of the aforementioned aspect.
  • the renal organoid is at least partially vascularized and/or comprise vascular progenitors.
  • the invention provides a method of determining the nephrotoxicity of one or a plurality of compounds, said method including the step of contacting the one or plurality of compounds with the isolated or purified nephron progenitor cells and/or ureteric epithelial progenitor cells, bioprinted renal structure, array and/or renal organoid of the aforementioned aspects, or kidney cells or tissues differentiated or otherwise obtained therefrom, to thereby determine whether or not the one or plurality of compounds is nephrotoxic.
  • this aspect provides bioprinting of the nephron progenitors and/or ureteric epithelial progenitors into kidney organoids for nephrotoxicity screening.
  • FIG. 1 Differential effects of culturing with CHIR for 3, 4 or 5 days followed by FGF 9 alone (b) or together with RA (a) or an RA antagonist (c).
  • FIG. 4 Presence of all segments of a normal developing nephron, including collecting duct (GATA 3 + PAX 2 + ECAD + ), distal tubule (ECAD + GATA 3 ⁇ LTL ⁇ ), proximal tubule (LTL + AQP 1 + ) and glomerulus (WT 1 + NPHS 1 + SYNPO + ), connected to each other suggestive of normal embryonic organogenesis.
  • Pink GATA 3
  • Green ECAD
  • Blue LTL
  • Red WT 1
  • Collecting duct Pink and green
  • Distal tubule green
  • Proximal tubule blue
  • glomeruli red in nuclei
  • FIG. 5 Renal organoids of 11 days culture after being pelleted.
  • a an image of bright field showing 3 to 5 cm in diameter.
  • b an image of immunofluorescent staining.
  • FIG. 6 Addition of a 45 minute pulse of high CHIR (5 ⁇ M) immediately upon reaggregation followed by culture in FGF 9 with or without AGN (retinoic inhibitor), BMP 7 , low CHIR or RA for 5 days then without these factors for 6 days.
  • a 4 day pellet with no CHIR;
  • b 4 day pellet with 45 min CHIR pulse;
  • c 11 day pellet with no CHIR;
  • d 11 day pellet with 45 min CHIR pulse.
  • FIG. 7 Selective induction of either the collecting duct or kidney mesenchyme lineage.
  • a Schematic illustrating the mechanism of A-P patterning of the IM in the embryogenesis 13 .
  • the timing of PSM cell migration determines the timing of the exposure to FGF 9 and RA, resulting in fate selection between AI and PI.
  • PSM presomitic mesoderm
  • AI anterior intermediate mesoderm
  • PI posterior intermediate mesoderm
  • UE ureteric epithelium
  • MM metanephric mesenchyme.
  • b Schematic of three experimental timelines.
  • c Timecourse qPCR of an initial 7 days of the differentiation from the above timings. Experiments were conducted using monolayer culture condition.
  • FIG. 8 Generating a kidney organoid equivalent to the human fetal kidney in vitro.
  • a Schematic of the differentiation protocol from hPSCs.
  • c Tile scan immunofluorescence of a whole kidney organoid displaying structural complexity.
  • e Confocal microscopy generating serial z-stack images from the bottom to the top of a day 11 kidney organoid (Extended Data Video 1 and 2). Schematic illustrates the position of different structures within an organoid.
  • e′, e′′ and e′′' are representative images taken through the organoids at the position indicated in e.
  • f Heat map visualizing the relative transcriptional identity (score from 0 to 1 determined using the KeyGene algorithm 15 ) of kidney organoids to 13 human fetal tissues.
  • RNA-seq was performed on whole kidney organoids from 4 time points (day 0, 3, 11, 18 post aggregation) ⁇ 3 individual organoids from 1 experiment/timepoint (See Supplementary Table 2).
  • g A dendrogram showing the hierarchical clustering of day 0, 3, 11 and 18 kidney organoids with human fetal organs from both first trimester and second trimester, based upon 85 key genes (Supplementary Table 3) previously defined 15 . This clearly shows a close match with Trimester 1 fetal kidney from day 11 and 18 of culture.
  • FIG. 9 Kidney organoids contain differentiating nephrons, stroma and vasculature with progressive maturation with time in culture.
  • a Schematic illustrating the developmental pathway from IM to each cellular component of the kidney.
  • CD collecting ducts
  • DT distal tubules
  • LoH loops of Henle
  • PT proximal tubules
  • POD podocytes
  • VASC vasculature
  • STROM renal interstitium.
  • b-j Immunofluorescence of kidney organoids at either day 11 or 18.
  • FIG. 10 Functional maturation of the proximal tubule.
  • FIG. 12 Changes of gene expression during development of the kidney organoid.
  • a-c Graphs showing expression changes of selected marker genes at 4 time points (day 0, 3, 11 and 18) of the kidney organoid culture.
  • X-axis represents the count of detection for each gene in an RNA sequencing analysis. Markers of the nephron progenitor (Cap mesenchyme) and collecting duct progenitor (Ureteric tip) were peaked by day 3 then dropped (a). Markers of early nephron increased by day 3 , while those of mature nephron components (Proximal and distal tubule and Podocytes) started after day 3 . Illustrations show expression regions (blue colored) of each selected gene in the developing kidney (b).
  • FIG. 13 Dendrogram showing the hierarchical clustering of D 0 , D 3 , D 11 , D 18 differentiation experiments and 21 human fetal organs from first and second trimester (GSE66302) 15 .
  • Sample name is composed of individual ID followed by an organ name and gestation week.
  • ‘DJ1 kidney_9’ represents a kidney at 9th week gestation from individual ID: DJ1.
  • D 0 and D 3 kidney organoids cluster with gonad, in agreement with the common origin of both gonad and kidney from the intermediate mesoderm.
  • D 11 and D 18 kidney organoids show strongest similarity to trimester 1 human kidney.
  • the Classifier genes used for this analysis are detailed in Table 3.
  • the invention is at least partly predicated on the identification of specific in vitro culture conditions that are tailored to promote the synchronous, simultaneous differentiation of nephron progenitor cells and ureteric epithelial progenitors from intermediate mesoderm (IM) to produce at least partly vascularized renal organoids or other renal cell or tissue aggregates.
  • IM mesoderm
  • FGF 9 plus heparin alone, or in combination with one or more agents including bone morphogenic protein 7 (BMP 7 ), retinoic acid (RA), an RA antagonist; a Wnt agonist; and/or FGF 20 plus heparin; and/or FGF 2 plus heparin is capable of facilitating differentiation of intermediate mesoderm into nephron progenitor cells and ureteric epithelial progenitors.
  • BMP 7 bone morphogenic protein 7
  • RA retinoic acid
  • an RA antagonist a Wnt agonist
  • FGF 20 plus heparin heparin
  • FGF 2 plus heparin is capable of facilitating differentiation of intermediate mesoderm into nephron progenitor cells and ureteric epithelial progenitors.
  • the in vitro culture method provides a system for differentiating human embryonic stem cells through posterior primitive streak, IM and metanephric mesenchymal stages to produce nephron
  • the presence or absence of certain molecules such as RA, RA antagonist and/or Wnt agonist can be manipulated to preferentially promote the production of nephron progenitor cells versus ureteric epithelial progenitors, or vice versa.
  • the invention is also predicated on the discovery that human pluripotent stem cells may be directed to form a complex multicellular kidney organoid that comprises fully segmented nephrons surrounded by endothelia and renal interstitium and is transcriptionally similar to a human fetal kidney.
  • Vascularization may be facilitated by conditions that promote or direct development of vascular endothelium from mesenchymal cells or tissues.
  • the nephron progenitor cells and ureteric epithelial progenitor cells are simultaneously induced, direct the differentiation of each other in vivo and are capable of developing into distinct tubular epithelial structures, including ureteric tree and nephron progenitor mesenchyme, during which the epithelial structures substitute for the ureteric tip to maintain the nephron progenitor cells. It is therefore proposed that the hESC-derived ureteric epithelium and/or nephron progenitor cells produced according to the invention may be directed to differentiate into renal cells from both the ureteric and mesenchymal compartments.
  • nephron progenitor cells, nephrons derived therefrom or kidney organoids “self organized” as described above may also be suited to nephrotoxicity testing, which has been hampered by a previous inability to produce cells suitable for testing.
  • indefinite articles “a” and “an” are not to be read as singular indefinite articles or as otherwise excluding more than one or more than a single subject to which the indefinite article refers.
  • a cell includes one cell, one or more cells and a plurality of cells.
  • isolated material that has been removed from its natural state or otherwise been subjected to human manipulation.
  • Isolated material e.g., cells
  • Isolated material may be substantially or essentially free from components that normally accompany it in its natural state, or may be manipulated so as to be in an artificial state together with components that normally accompany it in its natural state.
  • enriched or purified is meant having a higher incidence, representation or frequency in a particular state (e.g an enriched or purified state) compared to a previous state prior to enrichment or purification.
  • differentiate relate to progression of a cell from an earlier or initial stage of a developmental pathway to a later or more mature stage of the developmental pathway. It will be appreciated that in this context “differentiated” does not mean or imply that the cell is fully differentiated and has lost pluropotentiality or capacity to further progress along the developmental pathway or along other developmental pathways. Differentiation may be accompanied by cell division.
  • progenitor cell is a cell which is capable of differentiating along one or a plurality of developmental pathways, with or without self-renewal.
  • progenitor cells are unipotent or oligopotent and are capable of at least limited self-renewal.
  • the stage or state of differentiation of a cell may be characterized by the expression and/or non-expression of one of a plurality of markers.
  • markers is meant nucleic acids or proteins that are encoded by the genome of a cell, cell population, lineage, compartment or subset, whose expression or pattern of expression changes throughout development.
  • Nucleic acid marker expression may be detected or measured by any technique known in the art including nucleic acid sequence amplification (e.g. polymerase chain reaction) and nucleic acid hybridization (e.g. microarrays, Northern hybridization, in situ hybridization), although without limitation thereto.
  • Protein marker expression may be detected or measured by any technique known in the art including flow cytometry, immunohistochemistry, immunoblotting, protein arrays, protein profiling (e.g 2D gel electrophoresis), although without limitation thereto.
  • One aspect of the invention provides a method of producing nephron progenitor cells and ureteric epithelial progenitor cells including the step of contacting intermediate mesoderm (IM) cells with: BMP 7 ; retinoic acid (RA); RA antagonist; a Wnt agonist; fibroblast growth factor 9 (FGF 9 ) and/or FGF 20 ; and heparin; to thereby produce nephron progenitor cells and ureteric epithelial progenitor cells from the IM cells.
  • IM intermediate mesoderm
  • retinoic acid or “RA” includes all forms of retinoic acid (e.g including all trans RA and 9-cis RA), analogs and/or retinoic acid receptor (RAR) agonists that have a similar biological activity to RA.
  • RAR retinoic acid receptor
  • RA analogs and RAR agonists including agonists non-selective and selective for RAR ⁇ , ⁇ or ⁇ are commercially available such as from R & D Systems and Tocris Bioscience.
  • RA antagonist includes retinoic acid receptor (RAR) antagonists and any other molecule(s) that inhibit, block or prevent RA signalling via the RAR.
  • RAR antagonists include AGN193109, LE 135, ER 50891, BMS 493, BMS 453 and MM 11253, although without limitation thereto. This definition does not exclude the possibility that the RA antagonist also or alternatively mimics a block in signalling via RAR from binding of another ligand.
  • a “Wnt agonist” is a molecule that inhibits GSK 3 (e.g GSK 3 - ⁇ ) in the context of the canonical Wnt signalling pathway, but preferably not in the context of other non-canonical, Wnt signalling pathways.
  • Wnt agonists include CHIR99021, LiCl SB-216763, CAS 853220-52-7 and other Wnt agonists that are commercially available from sources such as Santa Cruz Biotechnology and R & D Systems. This definition should not be read as absolutely excluding the possibility that the Wnt agonist mimics one or more other inhibitors of GSK 3 ⁇ activity.
  • fibroblast growth factors such as FGF 2 , FGF 9 and FGF 20 may be interchangeable, although FGF 9 is preferred.
  • Heparin is typically included to promote or enhance the biological activity of fibroblast growth factors such as FGF 2 , FGF 9 and/or FGF 20 .
  • FGF 9 , BMP 7 , retinoic acid (RA); RA antagonist; Wnt agonist; FGF 20 and heparin will be described in more detail hereinafter.
  • nephron progenitor cells are progenitor cells derived from metanephric mesenchyme that can differentiate into all nephron segments (other than collecting duct) via an initial mesenchyme to epithelial transition, which include nephron epithelia such as connecting segment, distal convoluted tubule (DCT) cells, distal straight tubule (DST) cells, proximal straight tubule (PST) segments 1 and 2 , PST cells, podocytes, glomerular endothelial cells, ascending Loop of Henle and/or descending Loop of Henle, although without limitation thereto. Nephron progenitor cells are also capable of self-renewal.
  • DCT distal convoluted tubule
  • DST distal straight tubule
  • PST proximal straight tubule
  • PST cells podocytes
  • glomerular endothelial cells ascending Loop of Henle and/or descending Loop of Henle, although
  • Non-limiting examples of markers characteristic or representative of metanephric mesenchyme include WT 1 , SIX 1 , SIX 2 , SALL 1 , GDNF and/or HOXD 11 , although without limitation thereto.
  • markers characteristic or representative of nephron progenitor cells include WT 1 , SIX 1 , SIX 2 , CITED 1 , PAX 2 , GDNF, SALL 1 , OSR 1 and HOXD 11 , although without limitation thereto.
  • ureteric epithelial progenitor cell an epithelial progenitor cell derived, obtainable or originating from mesonephric duct or its derivative ureteric bud that can develop into kidney tissues and/or structures such as the collecting duct.
  • Non-limiting examples of characteristic or representative markers of ureteric epithelial progenitor cells include HOXB 7 , cRET, GATA 3 , CALB 1 , E-CADHERIN and PAX 2 , although without limitation thereto.
  • the nephron progenitor cells and ureteric epithelial progenitor cells are differentiated from intermediate mesoderm (IM) cells is the presence of FGF 9 alone or in combination with one or more agents that include BMP 7 , retinoic acid (RA), agonist or analog, an RA antagonist such as AGN193109 and/or FGF 20 and preferably heparin.
  • IM mesoderm
  • intermediate mesoderm cells is meant embryonic mesodermal cells that arise from definitive mesoderm which in turn is derived from posterior primitive streak and can ultimately develop into the urogenital system, inclusive of the ureter and kidney and other tissues such as gonad.
  • markers characteristic or representative of intermediate mesoderm include PAX 2 , OSR 1 and/or LHX 1 .
  • IM cells production of IM cells is not meant to imply that the IM cells are a pure or homogeneous population of IM cells without other cell types being present (such as definitive mesoderm). Accordingly, reference to “IM cells” or a “population of IM cells” means that the cells or cell population comprise(s) IM cells.
  • IM cells are produced by contacting posterior primitive streak cells with one or more agents that facilitate differentiation of the posterior primitive streak cells into IM cells, as will be described in more detail hereinafter.
  • the IM cells are produced by contacting posterior primitive streak cells with one or more agents that facilitate differentiation of the posterior primitive streak cells into IM cells
  • the one or more agents include fibroblast growth factor 9 (FGF 9 ) and, optionally, an RA antagonist such as AGN193109 and/or one or more other FGFs such as FGF 2 and/or FGF 20 .
  • FGF 9 fibroblast growth factor 9
  • RA antagonist such as AGN193109
  • FGF 2 and/or FGF 20 one or more other FGFs
  • posterior primitive streak cells is meant cells obtainable from, or cells functionally and/or phenotypically corresponding to, cells of the posterior end of a primitive streak structure that forms in the blastula during the early stages of mammalian embryonic development.
  • the posterior primitive streak establishes bilateral symmetry, determines the site of gastrulation and initiates germ layer formation.
  • posterior primitive streak is the progenitor of mesoderm (i.e presumptive mesoderm) and anterior primitive streak is the progenitor of endoderm (i.e presumptive endoderm).
  • markers characteristic or representative of posterior primitive streak include Brachyury (T).
  • a non-limiting example of a marker characteristic or representative of anterior primitive streak is SOX 17 . MIXL 1 may be expressed by both posterior and anterior primitive streak.
  • posterior primitive streak cells are a pure or homogeneous population of posterior primitive streak cells without other cell types being present. Accordingly, reference to “posterior primitive streak cells” or a “population of posterior primitive streak cells” means that the cells or cell population comprise(s) posterior primitive streak cells.
  • posterior primitive streak cells are produced by contacting hPSC cells with one or more agents that facilitate differentiation of the hPSC cells into posterior primitive streak cells, as will be described in more detail hereinafter.
  • the one or more agents include bone morphogenic protein 4 (BMP 4 ), Activin A and/or a Wnt agonist such as CHIR99021.
  • BMP 4 bone morphogenic protein 4
  • Activin A Activin A
  • Wnt agonist such as CHIR99021.
  • human pluripotent stem cell and “hPSC” refer to cells derived, obtainable or originating from human tissue that display pluripotency.
  • the hPSC may be a human embryonic stem cell or a human induced pluripotent stem cell.
  • Human pluripotent stem cells may be derived from inner cell mass or reprogrammed using Yamanaka factors from many fetal or adult somatic cell types.
  • the generation of hPSCs may be possible using somatic cell nuclear transfer.
  • human embryonic stem cell refers to cells derived, obtainable or originating from human embryos or blastocysts, which are self-renewing and pluri- or toti-potent, having the ability to yield all of the cell types present in a mature animal.
  • Human embryonic stem cells can be isolated, for example, from human blastocysts obtained from human in vivo preimplantation embryos, in vitro fertilized embryos, or one-cell human embryos expanded to the blastocyst stage.
  • induced pluripotent stem cell and “iPSC” refer to cells derivable, obtainable or originating from human adult somatic cells of any type reprogrammed to a pluripotent state through the expression of exogenous genes, such as transcription factors, including a preferred combination of OCT 4 , SOX 2 , KLF 4 and c-MYC.
  • hiPSC show levels of pluripotency equivalent to hESC but can be derived from a patient for autologous therapy with or without concurrent gene correction prior to differentiation and cell delivery.
  • the method disclosed herein could be applied to any pluripotent stem cell derived from any patient or a hPSC subsequently modified to generate a mutant model using gene-editing or a mutant hPSC corrected using gene-editing.
  • Gene-editing could be by way of CRISPR, TALEN or ZF nuclease technologies.
  • hPSCs are contacted with BMP 4 , Activin A and/or CHIR99021 in a suitable culture medium in the absence of serum, such as APEL differentiation medium (Ng et al., 2008, Nat. Protoc. 3: 768), although without limitation thereto, to thereby produce posterior primitive streak cells that suitably comprise posterior primitive streak cells.
  • a suitable culture medium in the absence of serum such as APEL differentiation medium (Ng et al., 2008, Nat. Protoc. 3: 768), although without limitation thereto, to thereby produce posterior primitive streak cells that suitably comprise posterior primitive streak cells.
  • the hPSCs may be hESCs or iPSCs.
  • BMP 4 is at a concentration of about 5-40 ng/mL and Activin A is at a concentration of about 3-40 ng/mL. In one embodiment the concentration of BMP 4 is about 20-35 ng/mL, or more preferably about 30 ng/mL. In one embodiment, the concentration of Activin A is about 5-30 ng/mL or more preferably 10 ng/mL.
  • an optimal relative activity ratio is in the range of 3:1 to 1:6 BMP 4 to Activin A. Preferably, an optimal relative activity ratio is in the range of 3:1 to 1:1 BMP4 to Activin A.
  • a Wnt agonist such as CHIR99021 may be at a concentration in the range of about 0.5 to 50 ⁇ M, preferably about 4-30 ⁇ M, more preferably about 5-20 ⁇ M or advantageously about 8 ⁇ M. In certain embodiments, CHIR99021 is present alone, in the absence of BMP 4 and Activin A.
  • the population of stem cells may be cultured in the medium with BMP 4 , Activin A and/or a Wnt agonist such as CHIR99021 for 36-120 hours.
  • cells may be contacted for longer periods with BMP 4 , Activin A and/or CHIR99021 than is required for hESCs.
  • cells such as iPSCs may be contacted with BMP 4 , Activin A and/or CHIR99021 for up to 96-120 hrs.
  • the culture medium may be changed every 24-48 hrs.
  • contacting hPSCs with BMP 4 , Activin A and/or a Wnt agonist such as CHIR99021 as disclosed herein results in formation of primitive streak (PS) including posterior primitive streak.
  • PS primitive streak
  • This is an initial step towards the generation of mesodermal and endodermal tissue.
  • differentiation of hPSCs is toward a mixed population of cells that comprises cells expressing markers characteristic of posterior primitive streak (i.e. presumptive mesoderm) and cells expressing markers characteristic of anterior primitive streak (i.e. presumptive endoderm).
  • markers characteristic of posterior primitive streak include Brachyury (T).
  • a non-limiting example of a marker characteristic of anterior primitive streak is SOX 17 .
  • posterior primitive streak cells or a mixed primitive streak population comprising posterior primitive streak cells, are contacted with one or more fibroblast growth factors (FGFs) that at least includes FGF 9 and, optionally, FGF 2 and/or FGF 20 and/or a retinoic acid (RA) antagonist in a suitable culture medium in the absence of serum, such as APEL differentiation medium.
  • FGFs fibroblast growth factors
  • RA retinoic acid
  • the retinoic acid signalling antagonist is a retinoic acid receptor (RAR) inhibitor or antagonist such as AGN193109.
  • RAR retinoic acid receptor
  • FGF 2 , FGF 9 and/or FGF 20 are at a concentration of about 100 to 400 ng/mL. In a preferred embodiment, FGF 2 , FGF 9 and/or FGF 20 are at a concentration of about 150 to 300 ng/ML or advantageously about 200 ng/mL. In one embodiment, the concentration of the RA antagonist (e.g. AGN193109) is about 0.1-10 ⁇ M or more preferably 0.5-5 ⁇ M.
  • the cells are contacted with FGF 9 , alone or together with FGF 2 and/or FGF 20 and/or RA antagonist (e.g. AGN193109) for at least about 96 hours but not more than about 190-200 hours.
  • FGF 9 alone or with FGF 2 and/or FGF 20 and/or RA antagonist (e.g AGN193109) for about 96 hours.
  • the culture medium may be changed every 40-48 hrs.
  • contacting the posterior primitive streak cells (which typically express markers characteristic of posterior primitive streak (presumptive mesoderm) and anterior primitive streak (presumptive endoderm)) with FGF 9 alone or together with FGF 2 and/or FGF 20 results in differentiation of the cells toward a population of cells expressing markers characteristic of intermediate mesoderm (IM).
  • markers characteristic of intermediate mesoderm include PAX 2 , LHX 1 and OSR 1 .
  • resultant IM cells are contacted with FGF 9 alone or in combination with one or more of BMP 7 , RA, RA antagonist, FGF 20 , a Wnt agonist and/or heparin in a suitable culture medium in the absence of serum, such as APEL differentiation medium.
  • FGF 9 is at a concentration of about 20 ng to 1 ⁇ g/mL. In a preferred embodiment, FGF 9 is at a concentration of about 50-500 ng/mL, more preferably about 100-300 ng/mL or advantageously about 200 ng/mL.
  • heparin is included at a concentration of about 0.1-10 ⁇ g/mL, preferably about 0.3-5 ⁇ g/mL, 0.5-2 ⁇ g/mL or advantageously about 1 ⁇ g/mL.
  • FGF 20 is at a concentration of about 20 ng to 1 ⁇ g/mL. In a preferred embodiment, FGF 20 is at a concentration of about 50-500 ng/mL, more preferably about 100-300 ng/mL or advantageously about 200 ng/mL.
  • FGF 2 is at a concentration of about 20 ng to 1 ⁇ g/mL. In a preferred embodiment, FGF 2 is at a concentration of about 50-500 ng/mL, more preferably about 100-300 ng/mL or advantageously about 200 ng/mL.
  • FGF 20 and FGF 2 may replace or supplement FGF 9 , as these agents have similar biological activities.
  • BMP 7 is at a concentration of about 25 to 75 ng/mL. In a preferred embodiment, BMP 7 is at a concentration of about 35-60 ng/mL, 45-55 ng/mL or advantageously about 50 ng/mL.
  • RA is at a concentration of about 10 ⁇ M to 1 ⁇ M. In a preferred embodiment, RA is at a concentration of about 30 ⁇ M to 0.5 ⁇ M, more preferably about 50 ⁇ M to 0.2 ⁇ M or advantageously about 0.1 ⁇ M.
  • an RA antagonist such as AGN193109 is at a concentration of about 50 ⁇ M to 10 ⁇ M. In a preferred embodiment, AGN193109 is at a concentration of about 0.01 ⁇ M to 5 ⁇ M, more preferably about 0.1 ⁇ M to 5 ⁇ M or advantageously about 1 ⁇ M. Although not binding on the present invention, preliminary data suggest that higher concentrations of AGN193109 promote a relative increase in the proportion of metanephric mesenchyme cells.
  • a Wnt agonist such as CHIR99021 is present at a concentration in the range of about 0.1 ⁇ M to 10 ⁇ M, preferably about 0.2 ⁇ M to 5 ⁇ M or more preferably at about 1-2 ⁇ M.
  • the Wnt agonist promotes a relative increase in the production of nephron progenitor cells from the IM cells.
  • cells are contacted with FGF 9 alone or together with one or more of BMP 7 , RA, Wnt agonist, RA antagonist and/or FGF 20 and/or FGF 2 plus heparin for at least 72 hours but not more than 360 hours.
  • the cells are contacted for about 160-220 hrs or more preferably for about 190-200 hours.
  • the culture medium may be changed every 48-72 hrs.
  • contacting intermediate mesoderm cells with FGF 9 alone or together with one or more of BMP 7 , RA, an RA antagonist; a Wnt agonist and/or FGF 20 and/or FGF 2 and preferably heparin, as disclosed herein differentiates the intermediate mesoderm cells into cells of metanephric mesenchyme and ureteric epithelium cell lineages.
  • the metanephric mesenchyme lineage includes nephron progenitor cells that are optimally produced after about 72 hrs of culture in FGF 9 and heparin.
  • RA analog or agonist and/or RA antagonist may be chosen to manipulate the relative amount of ureteric epithelium that is produced by the method, compared to metanephric mesenchyme that is produced by the method.
  • RA promotes the formation of ureteric epithelium at the expense of metanephric mesenchyme
  • an RA antagonist such as AGN193109 promotes the formation of metanephric mesenchyme at the expense of ureteric epithelium.
  • a Wnt agonist such as CHIR99021 may also promotes the survival and/or formation of metanephric mesenchyme at the expense of ureteric epithelium.
  • Non-limiting examples of markers characteristic or representative of cells of the metanephric mesenchyme lineage or cells thereof include WT 1 , SIX 1 , SIX 2 , SALL 1 , GDNF and/or HOXD 11 , although without limitation thereto.
  • Non-limiting examples of markers characteristic or representative of nephron progenitor cells include WT 1 , SIX 2 , CITED 1 , PAX 2 , GDNF, SALL 1 and HOXD 11 , although without limitation thereto.
  • Non-limiting examples of markers characteristic or representative of cells of the ureteric epithelial lineage include HOXB 7 , GATA 3 , CALB 1 , E-CADHERIN, PAX 2 and/or cRET, although without limitation thereto.
  • Nephron progenitor cells are likely to be maximally generated 11-15 days, or advantageously 14 days (range of day 11 to 15) after commencement of the method from the start of hPSC cell culture, based upon the co-expression of WT 1 , SIX 2 , CITED 1 , PAX 2 , GDNF, SALL 1 and HOXD 11 .
  • Ureteric epithelial progenitor cells may be maximally generated after at least 10 days, or advantageously 14 days after commencement of the method from the start of hPSC culture, based upon the co-expression of HOXB 7 , cRET, E-CADHERIN and PAX 2 .
  • FGF 9 is present for at least part of, or entirely throughout, both steps (ii) and (iii) described herein. More preferably, a Wnt agonist such as CHIR99021 is present for at least part of step (i) described herein.
  • a particularly preferred method therefor includes the sequential steps of:
  • kidney differentiation from an initial population of hES cells in a total culture period of about 18-20 days.
  • a related aspect of the invention provides a method of producing definitive mesoderm cells, said method including the steps of contacting hPSCs with a Wnt agonist for a more prolonged period (optimally 3-5 days).
  • the method of this aspect produces a mesoderm cell population that comprises one or more of definitive mesoderm cells and IM cells, which may include both rostral and caudal IM.
  • IM cells which may include both rostral and caudal IM.
  • the longer the duration of culture with Wnt agonist the more caudal IM arises and the less rostral IM persists.
  • the method further includes the subsequent step of contacting the mesoderm cells with fibroblast growth factor 9 (FGF 9 ) and/or fibroblast growth factor 20 (FGF 20 ) and/or fibroblast growth factor 2 (FGF 2 ).
  • FGF 9 fibroblast growth factor 9
  • FGF 20 fibroblast growth factor 20
  • FGF 2 fibroblast growth factor 2
  • this step facilitates the differentiation of caudal and rostral IM.
  • the caudal and rostral IM will in turn differentiate to nephron progenitor cells and ureteric epithelial cells respectively.
  • inclusion of RA or an analog or agonist may increase the relative production of ureteric epithelial progenitor cells.
  • the method further includes the subsequent step of dissociating and reaggregating the cells. This may be performed in culture on a floating filter at an air-media interface. Suitably, this step facilitates the formation of renal organoids containing nephrons, stroma and vasculature.
  • the method further includes the subsequent addition of a Wnt agonist for 30-60 minutes.
  • this step facilitates the production of aggregated, renal organoids with maximal nephrons.
  • a preferred object of the method is to produce aggregated, differentiated nephron progenitor cells and ureteric epithelial progenitor cells that form an organoid or other at least partly organized, renal structure.
  • the presence of all segments of a normal developing nephron may be present in the organoid, including collecting duct (phenotypically GATA 3 + ECAD + ), early distal tubule (phenotypically GATA 3 ⁇ LTUECAD + ), early proximal tubule (phenotypically LTL + ECAD) and glomerulus (phenotypically WT 1 + ). suggestive of normal embryonic organogenesis.
  • formation of an aggregate of differentiated cells for culture as an organoid may be achieved in about 7 days culture as described above.
  • a preferred concentration of a Wnt agonist is about 1-50 mM, preferably about 1-20 ⁇ M, 5-15 ⁇ M or advantageously about 8 ⁇ M.
  • the duration of contact with the Wnt agonist is about 4 days.
  • FGF 9 is at a concentration of about 20 ng to 1 ⁇ g/mL. In a preferred embodiment, FGF 9 is at a concentration of about 50-500 ng/mL, more preferably about 100-300 ng/mL or advantageously about 200 ng/mL. Preferably, the duration of subsequent contact with FGF 9 /FGF 20 /FGF 2 includes heparin for about 3 days.
  • a short pulse of a Wnt agonist such as CHIR99021 is immediately upon reaggregation following culture in FGF 9 /FGF 20 /FGF 2 plus heparin.
  • a preferred concentration of a Wnt agonist e.g CHIR99021
  • the short pulse is typically between 0.5 and 2 hr, such as about 45 minutes or 1 hr.
  • the formation of aggregated, at least partly organized structures such as renal organoids may be assisted by maintaining or facilitating physical contact between the cultured cells.
  • pelleting of the cells prior to addition of the “short pulse” of Wnt agonist e.g CHIR99021
  • Wnt agonist e.g CHIR99021
  • cultures may further include one or more of: a retinoic acid (RA) antagonist, RA or RA agonist, bone morphogenic protein 7 (BMP 7 ) and/or heparin.
  • RA retinoic acid
  • BMP 7 bone morphogenic protein 7
  • heparin heparin
  • At least partial vascularization and/or the presence of vascular progenitor cells in the renal organoids or aggregates is facilitated by conditions that promote or direct development of vascular endothelium or vascular progenitors from mesenchyme cells or tissues.
  • aggregates of differentiated cells and/or organoids produced according to the aforementioned aspects may be cultured under conditions that facilitate at least partial vascularization, particularly vascularization of glomerular structures, or at least the production of progenitors of vascular endothelium or other vascular cells or tissues.
  • vascularization is facilitated by conditions that promote or direct development of vascular endothelium form mesenchyme cells or tissues.
  • the method may include co-culturing vascular endothelial progenitors (such as differentiated from human pluripotent stem cells) together with IM cells as described above, or added to cultures of at least partly differentiated nephron progenitor cells and ureteric epithelial progenitor cells, to thereby produce vascular cells or tissues such as vascular endothelium.
  • vascular endothelial progenitors such as differentiated from human pluripotent stem cells
  • IM cells as described above
  • the method may include reduced oxygen tension during culture.
  • 21% O 2 is the usual oxygen tension present in a standard tissue culture incubator.
  • the invention contemplates to 5 to 12% O 2 , which may be more equivalent to the oxygen tension experienced in the developing embryo. This may improve the capacity of the metanephric mesenchyme to generate VEGFA and thereby induce the formation and migration of Flk 1 + vascular endothelial progenitors.
  • protein agents such as BMP 4 , BMP 7 , Activin A, FGF 2 , FGF 9 and FGF 20 should be understood as encompassing native or recombinant or chemical synthetic proteins of any mammalian origin, inclusive of human, mouse and rat, although without limitation thereto.
  • these proteins may include chemical modifications, glycosylation, lipidation, labels such as biotin and additional amino acid sequences such as epitope tags or fusion partners as are well known in the art.
  • the aforementioned proteins may be obtained commercially and/or prepared as recombinant or chemical synthetic proteins by routine laboratory or manufacturing procedures.
  • the invention provides isolated or purified nephron progenitor cells, ureteric epithelial progenitor cells and/or renal organoids produced according to the methods disclosed herein.
  • the renal organoid comprises segmented nephrons surrounded by endothelia and renal interstitium.
  • the nephrons are segmented into four (4) or more components, including collecting duct (phenotypically GATA 3 + ECAD + ), early distal tubule (phenotypically GATA 3 ⁇ LTLECAD + ), early proximal tubule (phenotypically LTL + ECAD ⁇ ) and glomerulus (phenotypically WT 1 + ).
  • collecting duct trees are formed at the bottom of the organoid, connecting to distal and proximal tubules in the middle, with glomeruli at the top of the organoid.
  • nephron progenitor cells and/or ureteric epithelial progenitor cells may be obtained after an appropriate period of culture as hereinbefore described and in some optional embodiments may be further enriched or purified according to co-expression of surface markers.
  • Cell enrichment or purification may be by any technique or process known in the art inclusive of flow cytometric cell sorting (e.g. FACS), positive or negative cell selection by magnetic immunobeads (e.g DynabeadsTM), panning, density separation, complement mediated lysis or the like, although without limitation thereto.
  • Chronic kidney disease is a serious medical condition that affects 31 million Americans and 1.7 million Australians each year. Patients can lose 90% of their kidney function before they become symptomatic, resulting in kidney failure and dialysis or a kidney transplant. Medicare expenditure in the U.S. for end-stage renal disease was estimated at $28 billion in 2010.
  • an aspect of the invention provides a method of producing a kidney, or kidney cells or tissues, said method including the step of differentiating the kidney, or the kidney cells or tissues from the isolated or purified nephron and/or ureteric epithelial progenitor cells to thereby produce the kidney, or kidney cells or tissues. Furthermore, this aspect of the invention provides at least partial vascularization and/or the generation of vascular progenitor cells under conditions that promote or direct development of vascular endothelium or vascular progenitors from mesenchyme cells or tissues.
  • the invention provides a method for producing cells of the ureteric epithelium and metanephric mesenchyme lineages or compartments. Preferably, these cells are simultaneously induced and direct the differentiation of each other in vivo. These cells are capable of developing into distinct tubular epithelial structures, including ureteric tree and nephron progenitor mesenchyme. It is therefore proposed that the hPSC cell-derived ureteric epithelium and/or nephron progenitor cells produced according to the invention may be directed to differentiate into renal cells from both the ureteric and mesenteric mesenchymal compartments.
  • the nephron progenitor cells may be capable of differentiating into any nephron segment (other than collecting duct) including nephron epithelia such as connecting segment, distal convoluted tubule (DCT) cells, distal straight tubule (DST) cells, proximal straight tubule (PST) segments 1 and 2 , PST cells, podocytes, glomerular endothelial cells, ascending loop of Henle and/or descending loop of Henle, although without limitation thereto.
  • nephron epithelia such as connecting segment, distal convoluted tubule (DCT) cells, distal straight tubule (DST) cells, proximal straight tubule (PST) segments 1 and 2 , PST cells, podocytes, glomerular endothelial cells, ascending loop of Henle and/or descending loop of Henle, although without limitation thereto.
  • DCT distal convoluted tubule
  • DST distal straight tub
  • kidney repair such as by way of kidney tissue or organ bioengineering.
  • one embodiment of the method of this aspect may include adoptively transferring or transplanting the isolated or purified nephron and/or ureteric epithelial progenitor cells into a human to thereby produce the kidney, or kidney cells or tissues.
  • differentiation of the isolated or purified nephron and/or ureteric epithelial progenitor cells into the kidney or kidney cells or tissues occurs in vivo
  • Another embodiment of the method of this aspect may include at least partly differentiating the isolated or purified nephron and/or ureteric epithelial progenitor cells in vitro into kidney, or kidney cells or tissues, or progenitors of these.
  • the at least partly in vitro differentiated cells kidney, or kidney cells or tissues, or progenitors thereof are adoptively transferred or transplanted into a human.
  • the kidney, kidney cells or tissues may facilitate or contribute to regeneration or repair of the kidney, cells or tissues thereof.
  • One embodiment provides use of an organoid, orisolated nephron progenitors and/or ureteric epithelial progenitors obtained therefrom, to produce an engineered or artificial kidney.
  • isolated nephron progenitors and/or ureteric epithelial progenitors may be incorporated within a scaffold, such as a decellularised human kidney or extracellular matrix (ECM) component thereof, polyester fleece or biodegradable polymer scaffold, to thereby produce a regenerated renal tubule structure.
  • a scaffold such as a decellularised human kidney or extracellular matrix (ECM) component thereof, polyester fleece or biodegradable polymer scaffold
  • such methods may include one or more of: (a) isolating one or more differentiated cell types and/or or intermediate progenitor cell types from the organoids; and (b) delivering the one or more differentiated cell types and/or or intermediate progenitor cell types into a decellularised kidney scaffold.
  • the ECM from a kidney scaffold may be used as a matrix (e.g generated from the ECM alone or in association with a hydrogel) in which to seed or bioprint the one or more differentiated cell types and/or or intermediate progenitor cell types to thereby recellularize the kidney scaffold or matrix.
  • Another embodiment may relate to repairing a damaged or diseased kidney.
  • the method may include one or more of (i) isolating one or more differentiated cell types and/or or intermediate progenitor cell types from the organoids; (ii) delivering the one or more differentiated cell types and/or or intermediate progenitor cell types into a damaged or diseased kidney to thereby facilitate repair and/or regeneration of the diseased or damaged kidney. Delivery might by directly into the damaged or diseased kidney via parenchymal injection or via a vascular route.
  • kidney cells or tissues differentiated from the isolated nephron progenitors and/or ureteric epithelial progenitors in devices for assisting or facilitating renal dialysis.
  • bioartificial kidneys may be made by seeding kidney cells, or their progenitors into reactors to produce a ‘renal assistance device’ for use in parallel with dialysis.
  • kidneys or other nephron-containing organs, organoids or organ-like structures using kidney cells or tissues differentiated or otherwise obtained from the isolated nephron progenitors and/or ureteric epithelial progenitors described herein.
  • one particular aspect of the invention provides a method of bioprinting a renal structure, said method including depositing a plurality of hPSCs or other progenitor cells disclosed herein to form a renal structure having one or more functional characteristics of a kidney or component thereof, or which is capable of developing one or more functional characteristics of a kidney or component thereof
  • the hPSCs or other progenitor cells are subjected to a method disclosed herein for producing nephron progenitor cells and ureteric epithelial progenitor cells in the three-dimensional structure.
  • This particular aspect also provides a bioprinted renal structure having one or more functional characteristics of a kidney or component thereof, or which is capable of developing one or more functional characteristics of a kidney or component thereof, produced by the aforementioned method.
  • Another particular aspect of the invention provides a method of bioprinting a renal structure, said method including depositing a plurality of nephron progenitor cells and ureteric epithelial progenitor cells disclosed herein to form a renal structure having one or more functional characteristics of a kidney or component thereof, or which is capable of developing one or more functional characteristics of a kidney or component thereof.
  • the nephron progenitor cells and ureteric epithelial progenitor cells have been produced from hPSCs by a method disclosed herein.
  • the method produces a bioprinted renal structure that has, or is capable of developing, at least partial vascularization and/or vascular progenitor cells.
  • This particular aspect also provides a bioprinted renal structure having one or more functional characteristics of a kidney or component thereof, or which is capable of developing one or more functional characteristics of a kidney or component thereof, produced by the aforementioned method.
  • the bioprinted renal structure that has, or is capable of developing, at least partial vascularization and/or vascular progenitor cells.
  • the bioprinted renal structure is a three-dimensional renal structure.
  • the three-dimensional structure may be constructed or formed from a plurality of bioprinted “layers” or “arrays”, as will be described in more detail hereinafter.
  • the bioprinted renal structure component may be, or comprise, any structural and/or functional component of a kidney, such as a glomerulus, juxtaglomerular apparatus, interstitial tissue, collecting ducts, Bowman's capsule, proximal and/or distal convoluted tubules, vasculature such as arterioles, arteries, veins and/or capillaries, although without limitation thereto.
  • a structural and/or functional component of a kidney such as a glomerulus, juxtaglomerular apparatus, interstitial tissue, collecting ducts, Bowman's capsule, proximal and/or distal convoluted tubules, vasculature such as arterioles, arteries, veins and/or capillaries, although without limitation thereto.
  • the bioprinted renal structure is at least partly vascularized and/or comprises vascular progenitor cells.
  • the bioprinted kidney or kidney component may be implantable or otherwise adoptively transferrable into a host.
  • bioprinting includes and encompasses utilizing three-dimensional, precise deposition of cells (e.g., cell solutions, cell-containing gels, cell suspensions, cell concentrations, multicellular aggregates, organoids, multicellular bodies, etc.) via methodology that is compatible with an automated or semi-automated, computer-aided, three-dimensional prototyping device (e.g., a bioprinter).
  • cells e.g., cell solutions, cell-containing gels, cell suspensions, cell concentrations, multicellular aggregates, organoids, multicellular bodies, etc.
  • an automated or semi-automated, computer-aided, three-dimensional prototyping device e.g., a bioprinter
  • At least one component of an engineered, implantable renal organoid tissue and/or organ may bioprinted.
  • the engineered, implantable tissues and/or organs are entirely bioprinted.
  • bioprinted constructs are made with a method that utilizes a rapid prototyping technology based on three-dimensional, automated, computer-aided deposition of renal cells as disclosed herein, including cell solutions, cell suspensions, cell-comprising gels or pastes, cell concentrations, multicellular bodies (e.g., cylinders, spheroids, ribbons, etc.), and confinement material onto a biocompatible surface (e.g., composed of hydrogel and/or a porous membrane) by a three-dimensional delivery device (e.g., a bioprinter).
  • a biocompatible surface e.g., composed of hydrogel and/or a porous membrane
  • the term “engineered,” refer to renal tissues and/or organs means that cells, cell solutions, cell suspensions, cell-comprising gels or pastes, cell concentrates, multicellular aggregates, and layers thereof are positioned to form three-dimensional structures by a computer-aided device (e.g., a bioprinter) according to a computer script.
  • the computer script is, for example, one or more computer programs, computer applications, or computer modules.
  • three-dimensional tissue structures form through the post-printing fusion of cells or multicellular bodies similar to self-assembly phenomena in early morphogenesis.
  • the method of bioprinting is continuous and/or substantially continuous.
  • a non-limiting example of a continuous bioprinting method is to dispense bio-ink from a bioprinter via a dispense tip (e.g., a syringe, capillary tube, etc.) connected to a reservoir of bio-ink.
  • a continuous bioprinting method is to dispense bio-ink in a repeating pattern of functional units.
  • a repeating functional unit has any suitable geometry, including, for example, circles, squares, rectangles, triangles, polygons, and irregular geometries.
  • a repeating pattern of bioprinted function units comprises a layer or array and a plurality of layers or arrays are bioprinted adjacently (e.g., stacked) to form an engineered tissue or organ.
  • 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, or more layers or arrays are bioprinted adjacently (e.g., stacked) to form an engineered renal tissue or organ.
  • a bioprinted functional unit repeats in a tessellated pattern.
  • a “tessellated pattern” is a plane of figures that fills the plane with no overlaps and no gaps.
  • Advantages of continuous and/or tessellated bioprinting include, by way of non-limiting example, increased productivity of bioprinted tissue. Another non-limiting, exemplary advantage is eliminating the need to align the bioprinter with previously deposited elements of bio-ink. Continuous bioprinting also facilitates printing larger tissues from a large reservoir of bio-ink, optionally using a syringe mechanism.
  • methods for continuous bioprinting involve optimizing and/or balancing parameters such as print height, pump speed, robot speed, or combinations thereof independently or relative to each other.
  • the bioprinter head speed for deposition was 3 mm/s, with a dispense height of 0.5 mm for the first layer and dispense height was increased 0.4 mm for each subsequent layer.
  • the dispense height is approximately equal to the diameter of the bioprinter dispense tip. Without limitation a suitable and/or optimal dispense distance does not result in material flattening or adhering to the dispensing needle.
  • the bioprinter dispense tip has an inner diameter of about, 20, 50, 100, 150, 200, 250, 300, 350, 400, 450, 500, 550, 600, 650, 700, 750, 800, 850, 900, 950, 1000 ⁇ m, or more, including increments therein.
  • the bio-ink reservoir of the bioprinter has a volume of about 0.5, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100 cm 3 , or more, including increments therein.
  • the pump speed is suitable and/or optimal when the residual pressure build-up in the system is low.
  • favourable pump speeds depend on the ratio between the cross-sectional areas of the reservoir and dispense needle with larger ratios requiring lower pump speeds.
  • a suitable and/or optimal print speed enables the deposition of a uniform line without affecting the mechanical integrity of the material.
  • Organovo partnered with Invetech have developed an organ printing machine which uses a hydrogel scaffold to place human cells in a desired orientation to recreate human organs.
  • Kidney cells or tissues differentiated or otherwise obtained from the isolated nephron progenitors and/or ureteric epithelial progenitors described herein may be used with machines, such as the Organovo machine referred to above, to develop a “bioprinted” human kidney organoid or kidney.
  • Another aspect of the invention provides an array of nephron progenitors and ureteric progenitors having a planar geometry.
  • the array may comprise a plurality of stacked arrays, preferably 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14 or 15 or more stacked arrays.
  • the arrays may stacked in a tessellated pattern.
  • a related aspect of the invention provides kidney organoid obtained by maturing the array of the aforementioned aspect
  • the renal organoids are at least partially vascularized and/or comprise vascular progenitors.
  • nephron progenitors and/or ureteric epithelial progenitors, organoids and bioprinted renal structures described herein may be potential sources of purified, differentiated renal cell subtypes, organoids and/or bioprinted renal structures for cellular therapy.
  • the isolated nephron progenitors and/or ureteric epithelial progenitors described herein may be useful for generating renal cells or tissues after gene correction in certain genetically-inherited renal conditions.
  • correction of single gene renal disorders including Alport syndrome (COL 4 A 3 mutation) and the polycystic kidney diseases (PKD 1 , PKD 2 and others) may be assisted or facilitated by regeneration of renal tissue from the isolated nephron progenitors and/or ureteric epithelial progenitors described herein after gene correction.
  • iPSC lines derived, obtained or originating from a patient with genetic renal disease may be used for repair of genetic mutation(s) in vitro. Such cells could be used according to the method of the invention and then administered to the patent for autologous cellular therapy.
  • nephron progenitors and/or ureteric epithelial progenitors described herein may provide potential sources of purified, differentiated renal cells, bioprinted renal structures, renal organoids, arrays or renal tissue subtypes for nephrotoxicity screening.
  • another aspect of the invention provides a method of determining the nephrotoxicity of one or a plurality of compounds, said method including the step of contacting the one or plurality of compounds with the nephron progenitor cells and/or ureteric epithelial progenitor cells described herein, either as an organoid or after isolation and purification, or kidney cells or tissues differentiated or otherwise obtained therefrom, to thereby determine whether or not the one or plurality of compounds is nephrotoxic.
  • the method is performed using organoids or from isolated or purified nephron progenitor cells, or kidney cells or tissues derived from the nephron progenitor cells.
  • kidney or bioprinted kidney organoid may also be applicable to nephrotoxicity screening.
  • Nephrotoxicity may be assessed or measured by any appropriate test for renal cell function in vitro, including decreased creatinine clearance or biomarker expression such as by the Human Nephrotoxicity RT 2 ProfilerTM PCR Array from Qiagen or the High Content Analysis (HCA) Multiplexed Nephrotoxicity Assay from Eurofins, although without limitation thereto.
  • HCA High Content Analysis
  • cisplatin is a nephrotoxicant that induces caspase-mediated acute apoptosis of proximal tubular cells in the kidney cisplatin treatment of renal organoids induced specific acute apoptosis in mature proximal tubular cells, whereas immature cells did not undergo apoptosis.
  • FGF 9 plus heparin alone, or in combination with one or more agents including bone morphogenic protein 7 (BMP 7 ), retinoic acid (RA), an RA antagonist; a Wnt agonist; and/or FGF 20 plus heparin, is capable of facilitating differentiation of intermediate mesoderm into nephron progenitor cells and ureteric epithelial progenitors.
  • BMP 7 bone morphogenic protein 7
  • RA retinoic acid
  • Wnt agonist a Wnt agonist
  • FGF 20 plus heparin is capable of facilitating differentiation of intermediate mesoderm into nephron progenitor cells and ureteric epithelial progenitors.
  • the in vitro culture method provides a system for differentiating hPSCs through posterior primitive streak, IM and metanephric mesenchymal stages to produce nephron progenitor cells and ureteric epithelial progenitor cells.
  • the presence or absence of certain molecules such as RA, RA antagonist and/or Wnt agonist could be manipulated to preferentially promote the production of nephron progenitor cells versus ureteric epithelial progenitors, or vice versa.
  • the posterior PS is the progenitor population for the mesoderm such as the IM, and is induced from hPSCs using a Wnt agonist (e.g CHIR99021).
  • the IM differentiates to two key kidney progenitor populations: the ureteric epithelium (UE), the progenitor of collecting ducts; the metanehpric mesenchyme (MM), the progenitor of nephrons. While the anterior IM gives rise to UE, the posterior IM develops to the MM.
  • UE ureteric epithelium
  • MM metanehpric mesenchyme
  • Non-limiting examples of sources of reagents referred to in these methods are provided in Table 1.
  • cells should be approximately 80-90% confluent. If cells are not confluent, allow another day for incubation or do a lower split ratio.
  • Each 3D pellet organoid will have roughly 5 ⁇ 10 5 cells, aliquot the required amount of cell suspension into a 15 mL Falcon tube.
  • organoids can be stored at 4° C. for up to a week before immunofluorescence staining.
  • organoids formed via the aggregation of human pluripotent stem cells using the method disclosed herein show the following features indicative of normal kidney organogenesis.
  • FIG. 2 the presence of a Meis 1 + stromal population is shown to be present between the forming nephrons. This population is known to arise from metanephric mesenchyme, is present between the developing nephrons of the embryonic kidney and have been shown to contribute to the formation of the perivasculature of the final organ.
  • FIG. 3 the presence of CD31 + vascular progenitors.
  • FIGS. 4 and 5 show the presence of all segments of a normal developing nephron, including collecting duct (GATA 3 + PAX 2 + ECAD + ), distal tubule (ECAD + GATA 3 ⁇ LTL), proximal tubule (LTL + AQP 1 + ) and glomerulus (WT 1 + NPHS1 + SYNPO + ), connected to each other suggestive of normal embryonic organogenesis.
  • Variations in a number of parameters has improved the overall size, complexity, maturity and nephron number present within organoids formed from human pluripotent stem cells.
  • One approach combines human pluripotent stem cells differentiated to kidney together with human pluripotent stem cells differentiated to vascular endothelial progenitors using a protocol such as that of Orlova 31 .
  • Undifferentiated human iPSCs were maintained on the mouse embryonic fibroblasts (MEFs) (Millipore) as a feeder layer with human ES cell (hES) medium as described previously 1 . Cells were authenticated and tested for the mycoplasma infection 28 . Human iPSCs were plated on a Matrigel-coated (Millipore) culture dish and cultured in MEF-conditioned hES medium (MEF-CM) until reaching to 60-100% confluent.
  • MEFs mouse embryonic fibroblasts
  • hES human ES cell
  • cells were again plated on a Matrigel-coated at 5,000 cells/cm 2 in MEF-CM.
  • cells reached to 40-50% of confluent, cells were treated with 8 ⁇ M of CHIR99021 in APEL basal medium (STEMCELL Technologies) supplemented with Antibiotic-Antimycotic (Life Technologies) for 2-5 days, followed by FGF 9 (200 ng mL ⁇ 1 ) and Heparin (1 ⁇ g mL ⁇ 1 ) for another 5-2 days, with changing medium every second day.
  • FGF 9 200 ng mL ⁇ 1
  • Heparin (1 ⁇ g mL ⁇ 1 )
  • Cells (0.5 ⁇ 10 6 ) were spun down at ⁇ 400 g for 2 min to form a pellet and then transferred onto a Transwell 0.4 ⁇ m pore polyester membrane (#CLS 3450 Corning). Pellets were treated with 5 ⁇ M of CHIR99021 in APEL for 1 h, and then cultured with FGF 9 (200 ng mL ⁇ 1 ) and Heparin (1 ⁇ g mL ⁇ 1 ) for 5 days, followed by another 6-13 days in APEL basal medium, with changing medium three times a week. Culture medium should not exceed above a membrane.
  • organoids were fixed with 2% paraformaldehyde in PBS for 20 min at 4° C. followed by 3 times wash with PBS. Then organoids were blocked with 10% donkey serum, 0.3% Triton X/PBS for 2-3 h at room temperature and incubated with primary antibodies overnight at 4° C. After 5 times washing with 0.1% Triton X/PBS, secondary antibodies were incubated for 4 h at room temperature.
  • rabbit anti-PAX 2 (1:300, #71-6,000, Zymed Laboratories), goat anti-SIX 1 (1:300, #sc-9709, Santa Cruz Biotechnology), rabbit anti-SIX 2 (1:300, #11562-1-AP, Proteintech), mouse anti-ECAD (1:300, #610181, BD Biosciences), rabbit anti-WT 1 (1:100, #sc-192, Santa Cruz Biotechnology), mouse anti-HOXD 11 (1:300, #SAB1403944, Sigma-Aldrich), goat anti-GATA 3 (1:300, AF2605, R&D Systems), rabbit anti-JAG 1 (1:300, #ab7771, Abcam), goat anti-Cubilin (1:150, #sc-20607, Santa Cruz Biotechnology), sheep anti-NPHS 1 (1:300, AF4269, R&D Systems), LTL-biotin-conjugated (1:300, B-1325, Vector Laboratories), DBA-biotin-conjugated (1:300, B-1325, Vector Labor
  • Organoids were processed for electron microscopy using a method as follows. A solution of 5% glutaraldehyde in 2 ⁇ PBS was added directly to the organoid culture dish in equal volume to the growth medium and placed under vacuum for 5 min. The organoid was reduced in size by cutting into small blocks ( ⁇ 2 ⁇ 2mm), and irradiated in fresh fixative 2.5%, again under vacuum, for 6 minutes, in a Pelco Biowave (Ted Pella In, Redding, Calif.) at 80W power. Samples were then washed 4 ⁇ 2 min in 0.1 M cacodylate buffer.
  • Epon LX112 resin was used for embedding the tissue with infiltration at 25%, 50%, and 75% resin:absolute ethanol in the Pelco Biowave under vacuum at 250 watt for 3 min and finishing with 100% resin (twice), before the final embedding/blocking and curing at 60° C. for 12 hours.
  • Sequencing was performed using the Illumina NextSeq500 (NextSeq control software v1.2/Real Time Analysis v2.1) platform.
  • the library pool was diluted and denatured according to the standard NextSeq500 protocol and sequencing was carried out to generate single-end 76 bp reads using a 75 cycle NextSeq500 High Output reagent Kit (Catalog # FC-404-1005).
  • Reads were mapped against the reference human genome (hg19) using STAR 29 , and read counts for each gene in the UCSC annotation were generated using htseq-count in the HTSeq python package (http://www-huber.embl.de/users/anders/HTSeq/doc/index.html).
  • the number of uniquely mapped reads ranged from 18810634-36706805 per sample. Normalised read counts were calculated using the DESeq2 package 30 .
  • KeyGenes has used to generate the identity scores of D 0 , D 3 , D 11 , D 18 kidney organoids to different first trimester human organs, including the kidneys (GSE66302) 15 .
  • a dendrogram ( FIG. 13 ) showing the hierarchical clustering of D 0 , D 3 , D 11 , D 18 kidney organoids and 21 human fetal organs from first and second trimester (GSE66302) was based on the Pearson correlation of the expression levels of 85 classifier genes as determined by KeyGenes (vvi.vv, icevgenes,n1; Table 3).
  • the classifier genes were calculated by KeyGenes using the top 500 most differentially expressed genes of the human fetal data without including the extraembryonic tissues from that data set.
  • organoids at day 17 were cultured with 10 ⁇ g mL ⁇ 1 of 10,000 MW Dextran Alexa488-conjugated (D-22910, Life Technologies) for 24 h. Organoids were fixed and stained by LTL without permeabilization.
  • CHIR99021 A shorter period of CHIR99021 induced the AI markers, LHX 1 and GATA 3 , while longer days of CHIR99021 increased PI markers, HOXD 11 and EYA 1 , at day 7 .
  • Immunofluorescence analysis showed that a longer (or shorter) duration of CHIR99021 induced less (more) AI but more (less) PI, as indicated by GATA 3 and HOXD 11 respectively at day 7 of differentiation ( FIG. 7 d ).
  • nephron formation from the MM is initiated in response to Wnt9b secreted from the UE.
  • ectopic nephron formation can be triggered via the addition of canonical Wnt agonists 14 .
  • maximal nephron number per organoid required a pulse of CHIR99021 for one hour after forming a pellet ( FIG. 8 a and FIG. 11 a ).
  • the continued presence of FGF 9 post this CHIR99021 pulse was essential for nephrogenesis, suggesting an additional role for FGF signaling after Wnt-mediated nephron induction ( FIG. 11 b ).
  • kidney organoids showed complex morphogenetic patterning with collecting duct trees forming at the bottom of the organoid, connecting to distal and proximal tubules in the middle, with the glomeruli at the top of each organoid ( FIG. 8 e ′, e′′, e′′′).
  • Transcriptional profiling was performed and compared using an unbiased method with human fetal transcriptional datasets from 21 human fetal organs/tissues from the first and/or second trimester of pregnancyl 5 .
  • This analysis clustered kidney organoids at d 11 and d 18 of culture with first trimester human fetal kidney ( FIG. 8 f, g; FIG. 13 ).
  • organoids more closely matched the fetal gonad, an embryologically closely related tissue also derived from the IM.
  • the epithelial cell types (nephron and collecting duct) are surrounded by a renal interstitium (stroma) within which there is a vascular network.
  • stroma renal interstitium
  • the IM gives rise to stromal and vascular progenitors ( FIG. 9 a ) 16,17 .
  • FIG. 9 b vascular progenitors
  • FIG. 9 b nephron epithelia showed proximal (LTL + ECAD ⁇ ) and distal (LTL ⁇ ECAD + ) elements ( FIG. 9 c ).
  • proximal tubules matured to co-express LTL with ECAD, with Cubilin evident on the apical surface ( FIG. 9 d, e ).
  • Transmission electron microscopy (TEM) showed distinct epithelial subtypes; cells with few short microvilli surrounding an open lumen characteristic of collecting duct/distal tubule ( FIG. 9 k ) and typical proximal tubular epithelium displaying an apical brush border with tight junctions ( FIG. 9l ).
  • loops of Henle (UMOD + ) began to form ( FIG. 9f ).
  • WT 1 + NPHS1 + early glomeruli 18 comprising a Bowman's capsule with central podocyte formation was seen connected to proximal tubules ( FIG. 9 g ).
  • Kidney organoids also developed a CD31 + KDR + SOX17 + endothelial network with lumen formation ( FIG. 9 h ).
  • TEM showed the presence of primary and secondary foot processes characteristic of podocytes ( FIG. 9 m ).
  • renal interstitium differentiates into pericytes and mesangial cells 19 .
  • kidney organoids contained PDGFRA + perivascular cells that lie along KDR + endothelia and PDGFRA + early mesangial cells invaginating the glomeruli ( FIG. 14 a, b ), as observed in human fetal kidney 20 .
  • Early avascular glomeruli contained basement membrane, as indicated by Laminin staining and TEM, and showed attaching foot processes on the basement membrane In some instances, glomeruli showed evidence of endothelial invasion ( FIG. 9 i ), a feature never observed in explanted embryonic mouse kidneys 21 .
  • nephrons were surrounded by MEIS 1 + renal interstitial cells 22 , some of which were also FOXD 1 + ( FIG.
  • the proximal tubules represent a particular target for nephrotoxicity due to the expression of multidrug resistance (such as ABCB1, ABCG2) and anion and cation transporters (such as the SLC22 gene family) 23,24 .
  • Cisplatin is one of such nephrotoxicant that induces Caspase-mediated acute apoptosis of proximal tubular cells in the kidney 25,26 .
  • Cisplatin induced specific acute apoptosis in mature proximal tubular cells (LTL + ECAD + ), whereas immature cells (LTL + ECAIY) did not undergo apoptosis ( FIG. 10 b, c ).
  • kidney organoid that comprises fully segmented nephrons surrounded by endothelia and renal interstitium and is transcriptionally similar to a human fetal kidney.
  • Each kidney organoid reaches a substantial size with >500 nephrons per organoid, a number equivalent to a mouse kidney at 14.5 dpc 27 .
  • tissue complexity and degree of organoid functionalization observed here supports their use to screen drugs for toxicity, modelling genetic kidney disease or act as a source of specific kidney cell types for cellular therapy.
  • organoids from differentiated hES cell cultures alone opens the possibility of generating tissue-based nephrotoxicity screens, in vitro disease models or developing transplantable organoids to supplement renal function. It also suggests the feasibility of generating specific mature renal cell types for later purification.
  • Particular uses of the cells generated using this method may include:
  • cellular therapies and organ replacement or repair may include:
  • Cord ENSG00000077279 DCX X Umb.
  • Cord ENSG00000253293 HOXA10 7 Umb.

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