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Spatial resolution and location impact group structure in a marine food web 期刊论文
ECOLOGY LETTERS, 2020
作者:  Ohlsson, Mikael;  Eklof, Anna
收藏  |  浏览/下载:12/0  |  提交时间:2020/07/14
Communities  ecological networks  food webs  group model  group structure  spatial location  spatial resolution  
A developmental landscape of 3D-cultured human pre-gastrulation embryos 期刊论文
NATURE, 2020, 577 (7791) : 537-+
作者:  Xiang, Lifeng;  Yin, Yu;  Zheng, Yun;  Ma, Yanping;  Li, Yonggang;  Zhao, Zhigang;  Guo, Junqiang;  Ai, Zongyong;  Niu, Yuyu;  Duan, Kui;  He, Jingjing;  Ren, Shuchao;  Wu, Dan;  Bai, Yun;  Shang, Zhouchun;  Dai, Xi;  Ji, Weizhi;  Li, Tianqing
收藏  |  浏览/下载:33/0  |  提交时间:2020/07/03

Our understanding of how human embryos develop before gastrulation, including spatial self-organization and cell type ontogeny, remains limited by available two-dimensional technological platforms(1,2) that do not recapitulate the in vivo conditions(3-5). Here we report a three-dimensional (3D) blastocyst-culture system that enables human blastocyst development up to the primitive streak anlage stage. These 3D embryos mimic developmental landmarks and 3D architectures in vivo, including the embryonic disc, amnion, basement membrane, primary and primate unique secondary yolk sac, formation of anterior-posterior polarity and primitive streak anlage. Using single-cell transcriptome profiling, we delineate ontology and regulatory networks that underlie the segregation of epiblast, primitive endoderm and trophoblast. Compared with epiblasts, the amniotic epithelium shows unique and characteristic phenotypes. After implantation, specific pathways and transcription factors trigger the differentiation of cytotrophoblasts, extravillous cytotrophoblasts and syncytiotrophoblasts. Epiblasts undergo a transition to pluripotency upon implantation, and the transcriptome of these cells is maintained until the generation of the primitive streak anlage. These developmental processes are driven by different pluripotency factors. Together, findings from our 3D-culture approach help to determine the molecular and morphogenetic developmental landscape that occurs during human embryogenesis.


A 3D culture system to model human embryonic development, together with single-cell transcriptome profiling, provides insights into the molecular developmental landscape during human post-implantation embryogenesis.


  
Exploring spillover effects of ecological lands: A spatial multilevel hedonic price model of the housing market in Wuhan, China 期刊论文
ECOLOGICAL ECONOMICS, 2020, 170
作者:  Liu, Tian;  Hu, Weiyan;  Song, Yan;  Zhang, Anlu
收藏  |  浏览/下载:17/0  |  提交时间:2020/07/02
Spillover effect  Ecological compensation  Ecological lands  Spatial multilevel hedonic model  Non-linear spatial spillover  
Population growth and land development: Investigating the bi-directional interactions 期刊论文
ECOLOGICAL ECONOMICS, 2020, 169
作者:  Tong, Qingmeng;  Qiu, Feng
收藏  |  浏览/下载:18/0  |  提交时间:2020/07/02
Population growth  Land development  Spatial spillovers  Spatial regression model  
Habitat fragmentation and species diversity in competitive communities 期刊论文
ECOLOGY LETTERS, 2020, 23 (3) : 506-517
作者:  Rybicki, Joel;  Abrego, Nerea;  Ovaskainen, Otso
收藏  |  浏览/下载:30/0  |  提交时间:2020/07/02
Fragmentation  habitat loss  individual-based models  metacommunity theory  simulation model  spatial models  species richness  
Single-cell and spatial transcriptomics reveal somitogenesis in gastruloids 期刊论文
NATURE, 2020
作者:  Nixon, Christopher C.;  Mavigner, Maud;  Sampey, Gavin C.;  Brooks, Alyssa D.;  Spagnuolo, Rae Ann;  Irlbeck, David M.;  Mattingly, Cameron;  Ho, Phong T.;  Schoof, Nils;  Cammon, Corinne G.;  Tharp, Greg K.;  Kanke, Matthew;  Wang, Zhang;  Cleary, Rachel A.;  Upadhyay, Amit A.;  De, Chandrav;  Wills, Saintedym R.;  Falcinelli, Shane D.;  Galardi, Cristin;  Walum, Hasse;  Schramm, Nathaniel J.;  Deutsch, Jennifer;  Lifson, Jeffrey D.;  Fennessey, Christine M.;  Keele, Brandon F.;  Jean, Sherrie;  Maguire, Sean;  Liao, Baolin;  Browne, Edward P.;  Ferris, Robert G.;  Brehm, Jessica H.;  Favre, David;  Vanderford, Thomas H.;  Bosinger, Steven E.;  Jones, Corbin D.;  Routy, Jean-Pierre;  Archin, Nancie M.;  Margolis, David M.;  Wahl, Angela;  Dunham, Richard M.;  Silvestri, Guido;  Chahroudi, Ann;  Garcia, J. Victor
收藏  |  浏览/下载:55/0  |  提交时间:2020/07/03

Single-cell RNA sequencing and spatial transcriptomics reveal that the somitogenesis clock is active in mouse gastruloids, which can be induced to generate somites with the correct rostral-caudal patterning.


Gastruloids are three-dimensional aggregates of embryonic stem cells that display key features of mammalian development after implantation, including germ-layer specification and axial organization(1-3). To date, the expression pattern of only a small number of genes in gastruloids has been explored with microscopy, and the extent to which genome-wide expression patterns in gastruloids mimic those in embryos is unclear. Here we compare mouse gastruloids with mouse embryos using single-cell RNA sequencing and spatial transcriptomics. We identify various embryonic cell types that were not previously known to be present in gastruloids, and show that key regulators of somitogenesis are expressed similarly between embryos and gastruloids. Using live imaging, we show that the somitogenesis clock is active in gastruloids and has dynamics that resemble those in vivo. Because gastruloids can be grown in large quantities, we performed a small screen that revealed how reduced FGF signalling induces a short-tail phenotype in embryos. Finally, we demonstrate that embedding in Matrigel induces gastruloids to generate somites with the correct rostral-caudal patterning, which appear sequentially in an anterior-to-posterior direction over time. This study thus shows the power of gastruloids as a model system for exploring development and somitogenesis in vitro in a high-throughput manner.


  
Habitat fragmentation and species diversity in competitive communities 期刊论文
ECOLOGY LETTERS, 2020, 23 (3) : 506-517
作者:  Rybicki, Joel;  Abrego, Nerea;  Ovaskainen, Otso
收藏  |  浏览/下载:27/0  |  提交时间:2020/02/17
Fragmentation  habitat loss  individual-based models  metacommunity theory  simulation model  spatial models  species richness  
Multiscale Data Fusion for Surface Soil Moisture Estimation: A Spatial Hierarchical Approach 期刊论文
WATER RESOURCES RESEARCH, 2019, 55 (12) : 10443-10465
作者:  Kathuria, Dhruva;  Mohanty, Binayak P.;  Katzfuss, Matthias
收藏  |  浏览/下载:15/0  |  提交时间:2020/02/16
soil moisture remote sensing  scaling  multi-instrument data fusion  spatial hierarchical model  uncertainty  physical controls  
Modelling the climate, water and socio-economic drivers of farmer exit in the Murray-Darling Basin 期刊论文
CLIMATIC CHANGE, 2019
作者:  Wheeler, Sarah Ann;  Xu, Ying;  Zuo, Alec
收藏  |  浏览/下载:21/0  |  提交时间:2020/02/17
Climate  Water diversions  Farm exit  Australia  Spatial Durbin model  Murray-Darling Basin Plan  
Dynamical downscaling over the complex terrain of southwest South America: present climate conditions and added value analysis 期刊论文
CLIMATE DYNAMICS, 2019, 53 (11) : 6745-6767
作者:  Bozkurt, Deniz;  Rojas, Maisa;  Pablo Boisier, Juan;  Rondanelli, Roberto;  Garreaud, Rene;  Gallardo, Laura
收藏  |  浏览/下载:25/0  |  提交时间:2020/02/17
Model evaluation  Temporal-spatial scale analysis  Climate variability  Chile  Patagonia  Atacama Desert