学科组成员：余育和、黄洁、罗晓甜、熊雪平、毛成志、马林、王云峰、石紫涵。

　　学科组介绍： 

　　本学科组源于著名原生动物学家王家楫院士上世纪三十年代创建的浮游动物组。八十余年来，在以王家楫院士和沈韫芬院士为代表的数代学人的不懈努力下，本学科组在淡水生态学研究方面积淀了厚实的基础。学科组围绕原生动物的分类学和系统学开展研究，为构建一个能反映自然演化关系的分类系统提供资料；与此同时，拓展了淡水微型生物群落多样性、结构与功能研究。尤其近十几年来，利用宏基因组学技术，对宏观和微观生态系统开展了整合研究。 　 

　　主要研究包括： 

　　（1）原生动物分类和系统学 

　　利用形态学、发生学、分子生物学等技术方法对不同生境下的原生动物类群开展分类学和系统学研究。 

　　（2）宏观生态系统生态学 

　　利用经典生态学和宏基因组分子生态学研究方法，针对河流、湖泊、水库、人工模拟系统等淡水宏观生态系统（macro-ecosystem），开展浮游生物群落对不同环境的响应研究。 

　　（3）微观生态系统生态学 

　　利用宏基因组研究方法，针对鱼类肠道这一微观生态系统（micro-ecosystem），对不同鱼类（包括草食性、肉食性、滤食性和杂食性等不同食性的淡水鱼）肠道微生物群落结构及其功能进行比较研究。   

　　近5年课题： 

　　1.不同类型淡水水体原生动物生物多样性比较研究（2018-2021），国家自然科学基金 

　　2.武汉东湖原生动物群落对“六湖连通”的生态响应（2016-2019），国家自然科学基金委 

　　3.武汉东湖腹毛类纤毛虫的多样性与系统学研究（2015-2017），国家自然科学基金委 

　　4.池塘养殖系统内环境微生物群落演替过程及对受纳湖泊环境微生物的影响机制（2018-2022），蓝色粮仓科技创新国家重点研发计划子课题 

　　5.湖北东湖等三个湖泊微生物宏基因组分析与基因资源库建设（2018-2022），国家科技基础性资源调查专项子课题 

　　6.中国科学院青年创新促进会（2019-2022），青年人才项目 

　　7.淡水养殖水体纤毛虫多样性与环境负载评估（2018-2020），中国博士后科学基金“博新计划” 

　　8.汤逊湖腹毛亚纲纤毛虫多样性与系统学研究（2019-2021），中国科学院水生生物多样性与保护重点实验室开放课题 

　　9.赣江水系原生动物多样性调查与评估（2016-2017），中国环境科学研究院生物多样性保护专项子课题 

　　10.三峡库区原生动物多样性调查及图鉴编撰（2017-2018），科技部科技基础性工作专项子课题 

　　历年发表文章：  

　　2016-2020 

　　Xu WX, Zhao Y, Pan B, Liu YQ, Li Y, et al. 2020. Morphology, morphogenesis, and phylogeny of Urosoma caudata (Ehrenberg, 1833) Berger, 1999 (Ciliophora, Hypotrichia) based on a Chinese population. Journal of Eukaryotic Microbiology, 67: 76–85.  

　　Xu WX, Wang YY, Cheng T, Yu YH, El-Serehy H, et al. 2020. Reevaluation of the ‘well-known’ Paraurostyla weissei complex, with notes on the ontogenesis of a new Paraurostyla species (Ciliophora, Hypotrichia). European Journal of Protistology, 73: 125672.   

　　Luo XT, Huang J, Li LF, Song WB, Bourland WA. 2019. Phylogeny of the ciliate family Psilotrichidae (Protista, Ciliophora), a curious and poorly-known taxon, with notes on two algae-bearing psilotrichids from Guam, USA. BMC Evolutionary Biology, 19: 125.   

　　Li X, Huang J, Filker S, Stoeck T, Bi Y, et al. 2019. Spatio-temporal patterns of zooplankton in a main-stem dam affected tributary: a case study in the Xiangxi River of the Three Gorges Reservoir, China. Science China-Life Sciences, 62: 1058–1069. 

　　Ning Y, Chen L, Sheng Y, Zhang H, Al-Farraj AS, Huang J. 2019. Morphology, morphogenesis, and molecular phylogeny of a soil ciliate, Gonostomum kuehnelti Foissner, 1987 (Ciliophora, Hypotrichia), from northwestern China. Journal of Natural History, 53: 19-20, 1169-1185 

　　Lian C, Luo X, Fan X, Huang J, Yu Y, et al. 2018. Morphological and molecular redefinition of Euplotes platystoma Dragesco & Dragesco-Kernéis, 1986 and Aspidisca lynceus (Müller, 1773) Ehrenberg, 1830, with reconsideration of a ‘well-known’ Euplotes ciliate, Euplotes harpa Stein, 1859 (Ciliophora, Euplotida), Journal of Eukaryotic Microbiology, 65, 531–543. 

　　Li X, Yu Y, Li C, Yan Q. 2018. Comparative study on the gut microbiotas of four economically important Asian carp species, Science China-Life Sciences, 61: 86-95. 

　　Lu X, Huang J, Shao C, Berger H. 2018. Morphology, cell-division, and phylogeny of Schmidingerothrix elongate spec. nov. (Ciliophora, Hypotricha), and brief guide to hypotrichs with Gonostomum-like oral apparatus. European Journal of Protistology, 62, 24–42. 

　　Li X, Zhou L, Yu Y, Ni J, Xu W, Yan Q. 2017. Composition of gut microbiota in the Gibel Carp (Carassius auratus gibelio) varies with host development, Microbial Ecology, 74(1):239-249. 

　　Yan Q, Stegen JC, Yu Y, Deng Y, Li X, et al. 2017. Nearly a decade-long repeatable seasonal diversity patterns of bacterioplankton communities in the eutrophic Lake Donghu (Wuhan, China), Molecular Ecology, 26(14): 3839-3850. 

　　Gao F, Huang J, Zhao Y, Li L, Liu W, et al. 2017. Systematic studies on ciliates (Alveolata, Ciliophora) in China: progress and achievements based on molecular information, European Journal of Protistology, 61, 409–423. 

　　Liu M, Fan X, Gao F, Gao S, Yu Y, et al. 2016. Tetrahymena australis (Protozoa, Ciliophora): A well–known but ‘non–existing’ taxon–consideration of its identification, definition and systematic position. Journal of Eukaryotic Microbiology, 63, 760–770.  

　　Yan Q, Li J, Yu Y, Wang J, He Z, et al. 2016. Environmental filtering decreases with fish development for the assembly of gut microbiota. Environmental Microbiology, 18(12): 4739-4754 

　　Lu BR, Wang C, Huang J, Shi Y, Chen X. 2016. Morphology and SSU rDNA sequence analysis of two hypotrichous ciliates (Protozoa, Ciliophora, Hypotrichia) including the new species Metaurostylopsis parastruederkypkeae n. sp. Journal of Ocean University of China, 15 (5), 866–878. 

　　2011-2015 

　　Wu S, Xiong J, Yu Y. 2015. Taxonomic resolutions based on 18S rRNA genes: a case study of subclass copepoda. Plos One, 2015, 10(6):e0131498. 

　　Yan Q, Bi Y, Deng Y, He Z, Wu L, et al. 2015. Impacts of the Three Gorges Dam on microbial structure and potential function. Scientific Reports, 2015, 5: 8605 

　　Lu XT, Shao C, Yu Y, Warren A, Huang J. 2015. Reconsideration of the ‘well-known’ hypotrichous ciliate Pleurotricha curdsi (Shi et al., 2002) Gupta et al., 2003 (Ciliophora, Sporadotrichida), with notes on its morphology, morphogenesis and molecular phylogeny. International Journal of Systematic and Evolutionary Microbiology, 65, 3216–3225.  

　　Zhao X, Gao S, Fan Y, Strueder-Kypke M, Huang J. 2015. Phylogenetic framework of the systematically confused Anteholosticha-Holosticha complex (Ciliophora, Hypotrichia) based on multigene analysis. Molecular Phylogenetics and Evolution, 91, 238–247.  

　　Wang P, Gao F, Huang J, Struder-Kypke M, Yi Z. 2015. A case study to estimate the applicability of secondary structures of SSU-rRNA gene in taxonomy and phylogenetic analyses of ciliates. Zool. Scr., 44, 574–585.  

　　Chen L, Zhao X, Ma H, Warren A, Shao C, Huang J. 2015. Morphology, morphogenesis and molecular phylogeny of a soil ciliate, Pseudouroleptus caudatus caudatus Hemberger, 1985 (Ciliophora,Hypotricha), from Lhalu Wetland, Tibet. European Journal of Protistology, 51, 1–14.  

　　Huang J, Katz LA. 2014. Nanochromosome copy number does not correlate with RNA levels though patterns are conserved between strains of the ciliate morphospecies Chilodonella uncinata. Protist, 165: 445–451.  

　　Ni JJ*, Yan QY* (*contributed equally), Yu YH, Zhang TL. 2014. Factors influencing the grass carp gut microbiome and its effect on metabolism. FEMS Microbiology Ecology, 87(3): 704-714.  

　　Zhang X, Yan QY, Yu YH, Dai LL. 2014. Spatio-temporal pattern of bacterioplankton in Donghu Lake. Chinese Journal of Oceanology and Limnology, 32(3): 554-564.  

　　Ni JJ, Yan QY, Yu YH, Zhang TL. 2014. Fish gut microecosystem: a model for detecting spatial pattern of microorganisms. Chinese Journal of Oceanology and Limnology, 32(1): 54-57.  

　　Dai LL, Gong YC, Li XM, Feng WS, Yu YH.2014. Zooplankton assemblages and influence of environmental factors on them in Bosten Lake, a large oligosaline lake in arid northwestern China. Science Asia, 40(1): 1-10.  

　　倪加加, 余育和. 2014. 凝胶条带内 DNA 回收测序评估 DGGE 可靠性. 水生生物学报, 38(3): 454-458.  

　　王纯, 倪加加, 颜庆云, 李金金, 李星浩, 余育和. 2014. 草鱼与团头鲂肠道菌群结构比较分析. 水生生物学报，38(5): 868-875. 

　　李星浩, 颜庆云, 胡红娟, 李金金, 王纯, 余育和. 2014. 异育银鲫消化道微生物群落对恢复投喂的响应. 水生生物学报，38(5): 854-859.　   

　　Li XM*, Yan QY*(*contributed equally), Xie SQ, Hu W, Yu YH, Hu ZH. 2013. Gut microbiota contributes to the growth of fast-growing transgenic common carp (Cyprinus carpio L.). PloS ONE, 8(5): e64577. 

　　Ni JJ*, Yan QY*(*contributed equally), Yu YH. 2013. How much metagenomic sequencing is enough to achieve a given goal? Scientific Reports, 3: 1968. 

　　Yan QY, Yu YH, Dai LL. 2013. Tetrahymena-specific biomass evaluation with a DNA-based method. Science Asia, 39(1):36-41. 

　　Zhang X, Feng WS, Yan QY, Yu YH. 2013. Differences in DNA fingerprints of bacterioplankton community as affected by biomass collection approaches. Journal of pure and applied microbiology, 7(4): 2731-2738. 

　　李金金，倪加加，李学梅，颜庆云，余育和. 南方大口鲇消化道细菌群落结构与其胃肠分化的关系. 水生生物学报，4: 613-619. 

　　倪加加，余育和. 2013. 不同月份养殖草鱼幼鱼消化道微生物群落动态变化研究. 水生生物学报，10: 1558-1563. 

　　Ni JJ, Yu YH, Zhang TL, Gao L. 2012. Comparison of intestinal bacterial communities in grass carp, Ctenopharyngodon idellus, from two different habitats. Chinese Journal of Oceanology and Limnology, 30(5): 757-765. 

　　Li XM, Yu YH, Zhang TL, Feng WS, Ao HY, Yan QY. 2012. Seasonal variation of plankton communities influenced by environmental factors in an artificial lake. Chinese Journal of Oceanology and Limnology, 30(3): 397-403. 

　　Li XM, Yu YH, Feng WS, Yan QY, Gong YC. 2012. Host species as a strong determinant of the intestinal microbiota of fish larvae. Journal of Microbiology, 50(1): 29-37. 

　　Yan QY, van der Gast, Christopher J, Yu YH. 2012. Bacterial community assembly and turnover within the intestines of developing zebrafish. PloS ONE, 7(1): e30603. 

　　倪加加，余育和，吴含含，颜庆云，陈芳. 2012. 不同DGGE谱带信息提取方法对分析结果的影响. 水生生物学报，36(5): 1009-1011. 

　　Yan QY, Yu YH. 2011. Metagenome-based analysis: a promising direction for plankton ecological studies. Science China-Life Sciences, 54(1): 75-81. 

　　Li XM, Yu YH, Xie SQ, Yan QY, Chen YH. 2011. Effect of chitosan on intestinal bacteria of allogynogenetic crucian carp, Carassius auratus gibelio, as depicted by polymerase chain reaction-denaturing gradient gel electrophoresis. Journal of the World Aquaculture Society, 42(4): 539-548.  

　　Yan QY, Yu YH, Feng WS. 2011. Diversity of nifH gene amplified from plankton-community DNA in a shallow eutrophic lake (Lake Donghu, Wuhan, China), Limnology, 12(3): 245-251. 

　　2006-2010 

　　Ni JJ, Yu YH, Feng WS, Yan QY, Pan G, et al. 2010. Impacts of algal blooms removal by chitosan-modified soils on zooplankton community in Taihu Lake, China. Journal of Environmental Sciences-China, 22(10): 1500-1507. 

　　Gong YC, Xu KD, Zhan ZF, Yu YH, Li XM, et al. 2010. Alpha-tubulin and small subunit rRNA phylogenies of peritrichs are congruent and do not support the clustering of mobilids and sessilids (Ciliophora, Oligohymenophorea), Journal of Eukaryotic Microbiology, 57(3): 265-272. 

　　Yan QY, Yu YH, Feng WS, Pan G, Chen H, et al. 2009. Plankton community succession in artificial systems subjected to cyanobacterial blooms removal using chitosan-modified soils. Microbial Ecology, 58(1): 47-55. 

　　Wu L, Yu YH, Feng WS, Zhang TL. 2009. Genetic diversity of the plankton community and its relation to taxonomic composition and environmental factors in lake Xiliang. Journal of Freshwater Ecology, 24(1): 125-134. 

　　Wu L, Yu YH, Zhang TL, Feng WS, Zhang X, Li W. 2009. PCR-DGGE fingerprinting analysis of plankton communities and its relationship to lake trophic status. International review of Hydrobiology, 94(5): 528-541. 

　　Yu YH, Yan QY, Feng WS. 2008. Spatiotemporal heterogeneity of plankton communities in Lake Donghu, China, as revealed by PCR-denaturing gradient gel electrophoresis and its relation to biotic and abiotic factors. FEMS Microbiology Ecology, 63(3): 328-337. 

　　Yan QY, Yu YH, Feng WS, Yu ZG, Chen HT. 2008. Plankton community composition in the Three Gorges reservoir region revealed by PCR-DGGE and its relationships with environmental factors. Journal of Environmental Sciences, 20(6): 732-738. 

　　Chen XJ, Feng WS, Miao W, Yu YH, et al. 2008. A microcalorimetric assay of tetrahymena thermophila for assessing tributyltin acute toxicity. Journal of Thermal Analysis and Calorimetry, 94(3): 779-784. 

　　Chen XJ, Feng WS, Yu YH, et al. 2008. Studies on the toxic effects of La3+ to Tetrahymena thermophila by microcalorimetry. Biological Trace Element Research, 123(1-3): 242-249. 

　　Wu L, Feng WS, Yu YH, Shen YF. 2007. Temporal and spatial variations in the species composition, distribution, and abundance of protozoa in East Dongting lake, China. Journal of Freshwater Ecology, 22(4): 655-665. 

　　Yan QY, Yu YH, Feng WS, Deng WN, Song XH. 2007. Genetic diversity of plankton community as depicted by PCR-DGGE fingerprinting and its relation to morphological composition and environmental factors in Lake Donghu. Microbial Ecology, 54(2): 290-297. 

　　Gong YC, Yu YH, Zhu FY, Feng WS. 2007. Molecular phylogeny of Stentor (Ciliophora: Heterotrichea) based on small subunit ribosomal RNA sequences. Journal of Eukaryotic Microbiology, 54(1): 45-48. 

　　Chen XJ, Feng WS, Miao W, Shen YF, Yu YH. 2007. Effects of ytterbium ion on the growth, metabolism and membrane fluidity of Tetrahymena thermophila. Journal of Thermal Analysis and Calorimetry, 89(3): 835-839. 

　　Yan QY, Yu YH, Feng WS, Zhang WJ. 2006. DNA polymorphism of the plankton community and its relationships to species composition in the Three Gorges Reservoir Region of the Yangtze River. Journal of Freshwater Ecology, 21: 385-391. 

　　Yan QY, Yu YH, Feng WS. 2006. Genetic fingerprinting of plankton community provides new insights in aquatic ecology. Progress in Natural Science, 16(9): 893-898. 

　　Gong YC, Yu YH, Villalobo E, Zhu FY, Miao W. 2006. Reevaluation of the phylogenetic relationship between Mobiline and Sessiline Peritrichs (Ciliophora, Oligohymenophorea) based on sequences of 18S small subunit rRNA genes. Journal of Eukaryotic Microbiology, 53(5): 397-403. 

　　Zhang WJ, Yang J, Yu YH, Shu SW, Shen YF. 2006. Population genetic structure of Carchesium polypinum (Ciliophora: Peritrichia) in four Chinese lakes inferred from ISSR fingerprinting: high diversity but low differentiation. Journal of Eukaryotic Microbiology, 53(5): 358-363.  

　　Chen XJ, Miao W, Liu Y, Shen YF, Feng WS, Yu T, Yu YH. 2006. Microcalorimetry as a possible tool for phylogenetic studies of Tetrahymena. Journal of Thermal Analysis and Calorimetry, 84(2): 429-433. 

　　2001-2005 

　　Chen XJ, Feng WS, Shen YF, Liu Y, Miao W, Yu YH. 2005. Application of polyurethane foam units and calorimetry to microbial monitoring in Lake Donghu. Thermochimica Acta, 438(1-2): 63-69. 

　　Zhang WJ, Yang J, Yu YH, Shen YF. 2005. Identification, cloning, and characterization of microsatellite DNA in Euglena gracilis. Journal of Eukaryotic Microbiology, 52(4): 356-359. 

　　Gong YC, Yu YH, Feng WS, Shen YF. 2005. Phylogenetic relationships among Trichodinidae (Ciliophora: Peritricha) derived from the characteristic values of denticles. Acta Protozoologica, 44: 237-243. 

　　Yu YH, Feng WS, Shen YF, Ye ZH, Wang MH. 2005. Use of microbial community to evaluate performance of a wetland system in treating Pb/Zn mine drainage. Environmental Management, 36(6): 842-848. 

　　Shi XL, Warren A, Yu YH, Shen YF. 2004. Infraciliature and myoneme system of Campanella umbellaria (Protozoa, Ciliophora, Peritrichida). Journal of Morphology, 261: 43-51. 

　　Miao W, Feng WS, Yu YH, Zhang XY, Shen YF. 2004. Phylogenetic relationships of the subclass Peritrichia (Oligohymenophorea, Ciliophora) inferred from small subunit rRNA gene sequences. Journal of Eukaryotic Microbiology, 51(2): 180-186. 

　　Miao W, Yu YH, Zhang XY, Shen YF. 2004. Intraspecific phylogeography of Carchesium polypinum(Peritricha, Ciliophora) from China, inferred from 18S-ITS1-5.8S ribosomal DNA. Science China-Life Sciences, 1: 11-17. 

　　Zhao YF, Yu YH, Feng WS, Shen YF. Growth and production of free-living heterotrophic nanoflagellates in eutrophic lake-Lake Donghu, Wuhan, China. Hydrobiologia, 2003, 498(1-3):85-95. 

　　Miao W, Yu YH, Shen YF, Zhang XY. 2002. Phylogenetic relationships among six species of Epistylisinferred from 18S-ITS1 sequences. Science China-Life Sciences, 45(3): 280-288. 

　　Miao W, Yu YH, Shen YF. 2001. Phylogenetic relationships of the subclass Peritrichia (Ciliophora) with the emphasis on the genus Epistylis, inferred from small subunit rRNA gene sequences. Journal of Eukaryotic Microbiology, 48(5): 583-587.