Yin Zhang , Juan Shen , Wei Cheng , Bhaskar Roy , Ruizhen Zhao , Tailiang Chai , Yifei Sheng , Zhao Zhang , Xueting Chen , Weiming Liang , Weining Hu , Qijun Liao , Shanshan Pan , Wen Zhuang , Yangrui Zhang , Rouxi Chen , Junpu Mei , Hong Wei , Xiaodong Fang
{"title":"微生物群介导的小鼠脾脏结构和免疫功能的形成,以scRNA-seq和Stereo-seq为特征。","authors":"Yin Zhang , Juan Shen , Wei Cheng , Bhaskar Roy , Ruizhen Zhao , Tailiang Chai , Yifei Sheng , Zhao Zhang , Xueting Chen , Weiming Liang , Weining Hu , Qijun Liao , Shanshan Pan , Wen Zhuang , Yangrui Zhang , Rouxi Chen , Junpu Mei , Hong Wei , Xiaodong Fang","doi":"10.1016/j.jgg.2023.04.012","DOIUrl":null,"url":null,"abstract":"<div><p><span><span>Gut microbes exhibit complex interactions with their hosts and shape an organism's immune system throughout its lifespan. As the largest secondary lymphoid organ, the spleen has a wide range of immunological functions. To explore the role of microbiota in regulating and shaping the spleen, we employ scRNA-seq and Stereo-seq technologies based on germ-free (GF) mice to detect differences in tissue size, anatomical structure, cell types, functions, and spatial molecular characteristics. We identify 18 cell types, 9 subtypes of </span>T cells<span><span><span>, and 7 subtypes of B cells. Gene differential expression analysis reveals that the absence of microorganisms results in alterations in erythropoiesis<span> within the red pulp region and congenital immune deficiency in the white pulp region. Stereo-seq results demonstrate a clear hierarchy of immune cells in the spleen, including marginal zone (MZ) macrophages, </span></span>MZ B cells, </span>follicular B cells and T cells, distributed in a well-defined pattern from outside to inside. However, this hierarchical structure is disturbed in GF mice. </span></span><em>Ccr7</em> and <em>Cxcl13</em><span> chemokines are specifically expressed in the spatial locations of T cells and B cells, respectively. We speculate that the microbiota may mediate the structural composition or partitioning of spleen immune cells by modulating the expression levels of chemokines.</span></p></div>","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":null,"pages":null},"PeriodicalIF":6.6000,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Microbiota-mediated shaping of mouse spleen structure and immune function characterized by scRNA-seq and Stereo-seq\",\"authors\":\"Yin Zhang , Juan Shen , Wei Cheng , Bhaskar Roy , Ruizhen Zhao , Tailiang Chai , Yifei Sheng , Zhao Zhang , Xueting Chen , Weiming Liang , Weining Hu , Qijun Liao , Shanshan Pan , Wen Zhuang , Yangrui Zhang , Rouxi Chen , Junpu Mei , Hong Wei , Xiaodong Fang\",\"doi\":\"10.1016/j.jgg.2023.04.012\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<div><p><span><span>Gut microbes exhibit complex interactions with their hosts and shape an organism's immune system throughout its lifespan. As the largest secondary lymphoid organ, the spleen has a wide range of immunological functions. To explore the role of microbiota in regulating and shaping the spleen, we employ scRNA-seq and Stereo-seq technologies based on germ-free (GF) mice to detect differences in tissue size, anatomical structure, cell types, functions, and spatial molecular characteristics. We identify 18 cell types, 9 subtypes of </span>T cells<span><span><span>, and 7 subtypes of B cells. Gene differential expression analysis reveals that the absence of microorganisms results in alterations in erythropoiesis<span> within the red pulp region and congenital immune deficiency in the white pulp region. Stereo-seq results demonstrate a clear hierarchy of immune cells in the spleen, including marginal zone (MZ) macrophages, </span></span>MZ B cells, </span>follicular B cells and T cells, distributed in a well-defined pattern from outside to inside. However, this hierarchical structure is disturbed in GF mice. </span></span><em>Ccr7</em> and <em>Cxcl13</em><span> chemokines are specifically expressed in the spatial locations of T cells and B cells, respectively. We speculate that the microbiota may mediate the structural composition or partitioning of spleen immune cells by modulating the expression levels of chemokines.</span></p></div>\",\"PeriodicalId\":54825,\"journal\":{\"name\":\"Journal of Genetics and Genomics\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":6.6000,\"publicationDate\":\"2023-09-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of Genetics and Genomics\",\"FirstCategoryId\":\"1089\",\"ListUrlMain\":\"https://www.sciencedirect.com/science/article/pii/S1673852723001091\",\"RegionNum\":2,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q1\",\"JCRName\":\"BIOCHEMISTRY & MOLECULAR BIOLOGY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Genetics and Genomics","FirstCategoryId":"1089","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S1673852723001091","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"BIOCHEMISTRY & MOLECULAR BIOLOGY","Score":null,"Total":0}
Microbiota-mediated shaping of mouse spleen structure and immune function characterized by scRNA-seq and Stereo-seq
Gut microbes exhibit complex interactions with their hosts and shape an organism's immune system throughout its lifespan. As the largest secondary lymphoid organ, the spleen has a wide range of immunological functions. To explore the role of microbiota in regulating and shaping the spleen, we employ scRNA-seq and Stereo-seq technologies based on germ-free (GF) mice to detect differences in tissue size, anatomical structure, cell types, functions, and spatial molecular characteristics. We identify 18 cell types, 9 subtypes of T cells, and 7 subtypes of B cells. Gene differential expression analysis reveals that the absence of microorganisms results in alterations in erythropoiesis within the red pulp region and congenital immune deficiency in the white pulp region. Stereo-seq results demonstrate a clear hierarchy of immune cells in the spleen, including marginal zone (MZ) macrophages, MZ B cells, follicular B cells and T cells, distributed in a well-defined pattern from outside to inside. However, this hierarchical structure is disturbed in GF mice. Ccr7 and Cxcl13 chemokines are specifically expressed in the spatial locations of T cells and B cells, respectively. We speculate that the microbiota may mediate the structural composition or partitioning of spleen immune cells by modulating the expression levels of chemokines.
期刊介绍:
The Journal of Genetics and Genomics (JGG, formerly known as Acta Genetica Sinica ) is an international journal publishing peer-reviewed articles of novel and significant discoveries in the fields of genetics and genomics. Topics of particular interest include but are not limited to molecular genetics, developmental genetics, cytogenetics, epigenetics, medical genetics, population and evolutionary genetics, genomics and functional genomics as well as bioinformatics and computational biology.