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Metagenomic analysis reveals hidden links between gut microbes and habitat adaptation among cave and surface dwelling sinocyclocheilus species

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Zoological Research 2023年第4期44卷 793-807页

作者： Hong-Yu Chen Chun-Qing Li Shan-Yuan Chen Hen Xiao School of Ecology and Environmental Sciences Yunnan UniversityKunmingYunnan 650500China Institute of Medical Biology Chinese Academy of Medical Sciences and Peking Union Medical SchoolKunmingYunnan 650031China

Intestinal microbes are closely related to vital host functions such as digestion and nutrient absorption,which play important roles in enhancing host *** a natural“laboratory”,caves provide an outstanding model for understanding the significance of gut microbes and feeding habits in the habitat adaptability of ***,research on the relationship between gut microbes,feeding habits,and the adaptability of troglobites remains *** this study,we compared the characteristics of the intestinal microbes of sinocyclocheilus cavefish and surface fish and further established the relationship between intestinal and habitat ***,we conducted environmental DNA(eDNA)(metabarcoding)analysis of environmental samples to clarify the composition of potential food resources in the habitats of the sinocyclocheilus cavefish and surface *** showed that the structure of the sinocyclocheilus gut microbes was more related to ecological type(habitat type)than phylogenetic *** horizontal transfer of habitat microbes was a source of gut microbes,hosts also showed strong selection for inherent microbes as dominant *** in the composition and structure of gut microbes,especially dominant microbes,may enhance the adaptability of the two sinocyclocheilus fish types from the perspectives of food intake,nutrient utilization,and harmful substance metabolism,suggesting that food resources,predation patterns,intestinal flora,digestive and absorptive capacity,and feeding habits and preferences are linked to habitat *** results should facilitate our understanding of the significance of fish gut microbes to habitat adaptation and provide a new perspective for studying the adaptive mechanisms of cavefish.

关键词： Cavefish Intestinal microbes sinocyclocheilus Adaptive mechanism

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Molecular phylogeny and historical biogeography of the cave fish genus sinocyclocheilus(Cypriniformes:Cyprinidae)in southwest China

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Integrative Zoology 2022年第2期17卷 311-325页

作者： Huamei WEN Tao LUO Yali WANG Siwei WANG Tao LIU Ning XIAO Jiang ZHOU School of Life Sciences Central China Normal UniversityWuhanChina School of Karst Sciences Guizhou Normal UniversityGuiyangChina School of Life Sciences Guizhou Normal UniversityGuiyangChina Department of Senior High School Liupanshui No.4 Higth SchoolLiupanshuiChina Department of Basic Medicine Guiyang Nursing Vocational CollegeGuiyangChina

Modern accumulations of genetic data offer unprecedented opportunities for understanding the systematic classification and origins of specific groups of *** genus sinocyclocheilus is among the most cave abundant genera in Cyprinidae,with 76 recognized species,belonging to 4 species *** phylogenetic studies have shown that the classification of species groups within the genus sinocyclocheilus remains *** this study,we constructed a sequence supermatrix of 26 species from 4 species groups of the genus sinocyclocheilus using the mitochondrial genome to reveal phylogenetic relationships,historical biogeography and patterns of species diversification in the genus *** analysis strongly supports the monophyletic groups of the 3 species groups(***,***,and *** groups)except the *** *** analysis showed that *** and ***,which were recognized as numbers of *** group,formed a strongly supported independent ***,we propose a new species group,the *** group,which contains *** and *** reconstruction suggests that the living sinocyclocheilus may have originated in north-central Guangxi at the late Eocene and dispersed outward after a vicariance at 32.31 Million years ago(Ma).Early diversification is focused on the late Oligocene(ca.25 Ma),which is related to the second uplift of the Qinghai−Tibetan Plateau and the lateral extrusion of the Indochina at the Oligocene/Miocene *** results suggest that 2 uplifts of the Qinghai−Tibetan Plateau and climate change in the Miocene may have influenced the diversification of the sinocyclocheilus lineage.

关键词： biogeography cave fish karst phylogeny sinocyclocheilus

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Differentially-expressed opsin genes identified in sinocyclocheilus cavefish endemic to China

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Current Zoology 2013年第2期59卷 170-174页

作者： Fanwei MENG Yahui ZHAO John H. POSTLETHWAIT Chunguang ZHANG Institute of Zoology Chinese Academy of Sciences Beijing 100101 China Institute of Neuroscience University of Oregon Eugene OR 97403 USA

Eye degeneration is a common troglomorphic character of cave-dwelling organisms. Comparing the morphology and molecular biology of cave species and their close surface relatives is a powerful tool for studying regressive eye evolution and other adaptive phenotypes. We compared two co-occurring and closely-related species of the fish genus sinocyclocheilus, which is endemic to China and includes both surface- and cave-dwelling species. sinocyclocheilus tileihornes, a cave species, had smaller eyes than sinocyclocheilus angustiporus, a surface species. Histological and immunohistochemical analyses revealed that the cave- fish had shorter cones and more disorderly rods than did the surface-dwelling species. Using quantitative PCR and in situ hybri- dization, we found that rhodopsin and a long-wavelength sensitive opsin had significantly lower expression levels in the cavefish. Furthermore, one of two short-wavelength-sensitive opsins was expressed at significantly higher levels in the cavefish. Changes in the expression ofopsin genes may have played a role in the degeneration of cavefish eyes [Current Zoology 59 （2）： 170-174, 2013].

关键词： sinocyclocheilus Cavefish Eye Retina Opsin.

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中国特有金线鲃属(sinocyclocheilus)鱼类的物种多样性、系统发育及其动物地理学研究

中国特有金线鲃属(Sinocyclocheilus)鱼类的物种多样性、系统发育...

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中国海洋湖沼学会鱼类学分会、中国动物学会鱼类学分会2004年学术研讨会

作者：赵亚辉张春光中国科学院动物研究所

洞穴作为一种特殊的生境孕育着很多鲜为人知的生物,一直吸引着很多科学家研究的目光。我国是一个喀斯特(Karst)地貌十分发育的国家,喀斯特地貌出露在120万平方公里以上,占国土陆地面积的七分之一,其中孕育着很多千奇百怪、千姿百态的岩... 详细信息

洞穴作为一种特殊的生境孕育着很多鲜为人知的生物,一直吸引着很多科学家研究的目光。我国是一个喀斯特(Karst)地貌十分发育的国家,喀斯特地貌出露在120万平方公里以上,占国土陆地面积的七分之一,其中孕育着很多千奇百怪、千姿百态的岩溶洞穴。

关键词：金线鲃属 sinocyclocheilus 动物地理学物种多样性系统发育

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Brain of the blind:transcriptomics of the golden-line cavefish brain

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Current Zoology 2018年第6期64卷 765-773页

作者： Fanwei MENG Yahui ZHAO Tom TITUS Chunguang ZHANG John H.POSTLETHWAIT State Key Laboratory of Membrane Biology Institute of ZoologyChinese Academy of SciencesBeijing 100101China Key Laboratory of Zoological Systematics and Evolution Institute of ZoologyChinese Academy of SciencesBeijing 100101China Institute of Neuroscience University of OregonEugeneOR 97403USA

The genus sinocyclocheilus (golden-line barbel) includes 25species of cave-dwelling blind fish (cavefish)and more than 30 surface-dwelling species with normal *** environments are dark and generally nutrient-poor with few *** of several genera evolved convergent morphological adaptations in visual,pigmentation,brain,olfactory,and digestive systems. We compared brain morphology and gene expression patterns in a cavefish sinocyclocheilus anophthalmus with those of a closely related surface-dwelling species *** showed that cavefish have a longer olfactory tract and a much smaller optic tectum than surface *** by RNA-seq revealed that many genes upregulated in cavefish are related to lysosomes and the degradation and metabolism of proteins,amino acids,and *** down- regulated in cavefish tended to involve "activation of gene expression in cholesterol biosynthesis" and cholesterol degradation in the *** encoding Srebfs (sterol regulatory element- binding transcription factors)and Srebf targets,including enzymes in cholesterol synthesis,were downregulated in cavefish brains compared with surface fish *** gene encoding Cyp46a1, which eliminates cholesterol from the brain,was also downregulated in cavefish brains,while the total level of cholesterol in the brain remained *** brains misexpressed several genes encoding proteins in the hypothalamus-pituitary axis,including Trh,Sst,Crh,Pomc,and *** results suggest that the rate of lipid biosynthesis and breakdown may both be depressed in golden-line cavefish brains but that the lysosome recycling rate may be increased in cavefish;properties that might be related to differences in nutrient availability in caves.

关键词： cavefish cholesterol cyp46a optic tectum sinocyclocheilus transcriptomics

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