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Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage.

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Title: Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage.
Authors: Feng B; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China.; State Key Laboratory of Microbial Technology, Shandong University, Qingdao, 266237, China.; Laboratory for Marine Biology and Biotechnology, Qingdao Marine Science and Technology Center, Qingdao, 266237, China., Li Y; Guangdong Laboratory for Lingnan Modern Agriculture, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Center, South China Agricultural University, Guangzhou, 510642, China., Xu B; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China., Liu H; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China., Steenwyk JL; Howards Hughes Medical Institute and the Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA., David KT; Department of Biological Sciences, Vanderbilt University, Nashville, TN, 37235, USA.; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN, 37235, USA., Tian X; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China., Gonçalves C; Department of Biological Sciences, Vanderbilt University, Nashville, TN, 37235, USA.; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN, 37235, USA.; Associate Laboratory i4HB-Institute for Health and Bioeconomy and UCIBIO-Applied Molecular Biosciences Unit, Department of Life Sciences, NOVA School of Science and Technology, Universidade Nova de Lisboa, Caparica, Portugal.; UCIBIO-i4HB, Departamento de Ciências da Vida, Faculdade de Ciências e Tenologia, Universidade Nova de Lisboa, Caparica, Portugal., Opulente DA; Laboratory of Genetics, J. F. Crow Institute for the Study of Evolution, Center for Genomic Science Innovation, Department of Energy (DOE) Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA.; Biology Department, Villanova University, Villanova, PA, 19085, USA., LaBella AL; Department of Biological Sciences, Vanderbilt University, Nashville, TN, 37235, USA.; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN, 37235, USA.; Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, North Carolina Research Campus, Kannapolis, NC, 28233, USA.; Center for Computational Intelligence to Predict Health and Environmental Risks (CIPHER), University of North Carolina at Charlotte, Charlotte, NC, 28233, USA., Harrison MC; Department of Biological Sciences, Vanderbilt University, Nashville, TN, 37235, USA.; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN, 37235, USA., Wolters JF; Laboratory of Genetics, J. F. Crow Institute for the Study of Evolution, Center for Genomic Science Innovation, Department of Energy (DOE) Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA., Shao S; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China., Chen Z; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China., Fisher KJ; Laboratory of Genetics, J. F. Crow Institute for the Study of Evolution, Center for Genomic Science Innovation, Department of Energy (DOE) Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA.; Department of Biological Sciences, State University of New York at Oswego, Oswego, NY, 13126, USA., Groenewald M; Westerdijk Fungal Biodiversity Institute, Utrecht, 3584, The Netherlands., Hittinger CT; Laboratory of Genetics, J. F. Crow Institute for the Study of Evolution, Center for Genomic Science Innovation, Department of Energy (DOE) Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA., Shen XX; Key Laboratory of Biology of Crop Pathogens and Insects of Zhejiang Province, Institute of Insect Sciences, Zhejiang University, Hangzhou, 310058, China., Li S; State Key Laboratory of Microbial Technology, Shandong University, Qingdao, 266237, China., Rokas A; Department of Biological Sciences, Vanderbilt University, Nashville, TN, 37235, USA. antonis.rokas@vanderbilt.edu.; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN, 37235, USA. antonis.rokas@vanderbilt.edu., Zhou X; Guangdong Laboratory for Lingnan Modern Agriculture, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Center, South China Agricultural University, Guangzhou, 510642, China. xiaofan_zhou@scau.edu.cn., Li Y; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China. yuanning.li@email.sdu.edu.cn.; State Key Laboratory of Microbial Technology, Shandong University, Qingdao, 266237, China. yuanning.li@email.sdu.edu.cn.; Laboratory for Marine Biology and Biotechnology, Qingdao Marine Science and Technology Center, Qingdao, 266237, China. yuanning.li@email.sdu.edu.cn.
Source: Molecular systems biology [Mol Syst Biol] 2025 Aug; Vol. 21 (8), pp. 1066-1089. Date of Electronic Publication: 2025 May 27.
Publication Type: Journal Article
Journal Info: Publisher: EMBO Press Country of Publication: Germany NLM ID: 101235389 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1744-4292 (Electronic) Linking ISSN: 17444292 NLM ISO Abbreviation: Mol Syst Biol Subsets: MEDLINE
Database: MEDLINE Ultimate
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  Data: Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage.
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  Data: <searchLink fieldCode="AU" term="%22Feng+B%22">Feng B</searchLink>; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China.; State Key Laboratory of Microbial Technology, Shandong University, Qingdao, 266237, China.; Laboratory for Marine Biology and Biotechnology, Qingdao Marine Science and Technology Center, Qingdao, 266237, China.<br /><searchLink fieldCode="AU" term="%22Li+Y%22">Li Y</searchLink>; Guangdong Laboratory for Lingnan Modern Agriculture, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Center, South China Agricultural University, Guangzhou, 510642, China.<br /><searchLink fieldCode="AU" term="%22Xu+B%22">Xu B</searchLink>; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China.<br /><searchLink fieldCode="AU" term="%22Liu+H%22">Liu H</searchLink>; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China.<br /><searchLink fieldCode="AU" term="%22Steenwyk+JL%22">Steenwyk JL</searchLink>; Howards Hughes Medical Institute and the Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.<br /><searchLink fieldCode="AU" term="%22David+KT%22">David KT</searchLink>; Department of Biological Sciences, Vanderbilt University, Nashville, TN, 37235, USA.; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN, 37235, USA.<br /><searchLink fieldCode="AU" term="%22Tian+X%22">Tian X</searchLink>; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China.<br /><searchLink fieldCode="AU" term="%22Gonçalves+C%22">Gonçalves C</searchLink>; Department of Biological Sciences, Vanderbilt University, Nashville, TN, 37235, USA.; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN, 37235, USA.; Associate Laboratory i4HB-Institute for Health and Bioeconomy and UCIBIO-Applied Molecular Biosciences Unit, Department of Life Sciences, NOVA School of Science and Technology, Universidade Nova de Lisboa, Caparica, Portugal.; UCIBIO-i4HB, Departamento de Ciências da Vida, Faculdade de Ciências e Tenologia, Universidade Nova de Lisboa, Caparica, Portugal.<br /><searchLink fieldCode="AU" term="%22Opulente+DA%22">Opulente DA</searchLink>; Laboratory of Genetics, J. F. Crow Institute for the Study of Evolution, Center for Genomic Science Innovation, Department of Energy (DOE) Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA.; Biology Department, Villanova University, Villanova, PA, 19085, USA.<br /><searchLink fieldCode="AU" term="%22LaBella+AL%22">LaBella AL</searchLink>; Department of Biological Sciences, Vanderbilt University, Nashville, TN, 37235, USA.; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN, 37235, USA.; Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, North Carolina Research Campus, Kannapolis, NC, 28233, USA.; Center for Computational Intelligence to Predict Health and Environmental Risks (CIPHER), University of North Carolina at Charlotte, Charlotte, NC, 28233, USA.<br /><searchLink fieldCode="AU" term="%22Harrison+MC%22">Harrison MC</searchLink>; Department of Biological Sciences, Vanderbilt University, Nashville, TN, 37235, USA.; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN, 37235, USA.<br /><searchLink fieldCode="AU" term="%22Wolters+JF%22">Wolters JF</searchLink>; Laboratory of Genetics, J. F. Crow Institute for the Study of Evolution, Center for Genomic Science Innovation, Department of Energy (DOE) Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA.<br /><searchLink fieldCode="AU" term="%22Shao+S%22">Shao S</searchLink>; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China.<br /><searchLink fieldCode="AU" term="%22Chen+Z%22">Chen Z</searchLink>; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China.<br /><searchLink fieldCode="AU" term="%22Fisher+KJ%22">Fisher KJ</searchLink>; Laboratory of Genetics, J. F. Crow Institute for the Study of Evolution, Center for Genomic Science Innovation, Department of Energy (DOE) Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA.; Department of Biological Sciences, State University of New York at Oswego, Oswego, NY, 13126, USA.<br /><searchLink fieldCode="AU" term="%22Groenewald+M%22">Groenewald M</searchLink>; Westerdijk Fungal Biodiversity Institute, Utrecht, 3584, The Netherlands.<br /><searchLink fieldCode="AU" term="%22Hittinger+CT%22">Hittinger CT</searchLink>; Laboratory of Genetics, J. F. Crow Institute for the Study of Evolution, Center for Genomic Science Innovation, Department of Energy (DOE) Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA.<br /><searchLink fieldCode="AU" term="%22Shen+XX%22">Shen XX</searchLink>; Key Laboratory of Biology of Crop Pathogens and Insects of Zhejiang Province, Institute of Insect Sciences, Zhejiang University, Hangzhou, 310058, China.<br /><searchLink fieldCode="AU" term="%22Li+S%22">Li S</searchLink>; State Key Laboratory of Microbial Technology, Shandong University, Qingdao, 266237, China.<br /><searchLink fieldCode="AU" term="%22Rokas+A%22">Rokas A</searchLink>; Department of Biological Sciences, Vanderbilt University, Nashville, TN, 37235, USA. antonis.rokas@vanderbilt.edu.; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN, 37235, USA. antonis.rokas@vanderbilt.edu.<br /><searchLink fieldCode="AU" term="%22Zhou+X%22">Zhou X</searchLink>; Guangdong Laboratory for Lingnan Modern Agriculture, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Center, South China Agricultural University, Guangzhou, 510642, China. xiaofan_zhou@scau.edu.cn.<br /><searchLink fieldCode="AU" term="%22Li+Y%22">Li Y</searchLink>; Institute of Marine Science and Technology, Shandong University, Qingdao, 266237, China. yuanning.li@email.sdu.edu.cn.; State Key Laboratory of Microbial Technology, Shandong University, Qingdao, 266237, China. yuanning.li@email.sdu.edu.cn.; Laboratory for Marine Biology and Biotechnology, Qingdao Marine Science and Technology Center, Qingdao, 266237, China. yuanning.li@email.sdu.edu.cn.
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  Data: <searchLink fieldCode="JN" term="%22101235389%22">Molecular systems biology</searchLink> [Mol Syst Biol] 2025 Aug; Vol. 21 (8), pp. 1066-1089. <i>Date of Electronic Publication: </i>2025 May 27.
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