{"id":"https://openalex.org/W2072638849","doi":"https://doi.org/10.1093/molbev/msu407","title":"Parallel Functional Changes in Independent Testis-Specific Duplicates of Aldehyde dehydrogenase in Drosophila","display_name":"Parallel Functional Changes in Independent Testis-Specific Duplicates of Aldehyde dehydrogenase in Drosophila","publication_year":2015,"publication_date":"2015-01-05","ids":{"openalex":"https://openalex.org/W2072638849","doi":"https://doi.org/10.1093/molbev/msu407","mag":"2072638849","pmid":"https://pubmed.ncbi.nlm.nih.gov/25564519","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/4379408"},"language":"en","primary_location":{"id":"doi:10.1093/molbev/msu407","doi":"https://doi.org/10.1093/molbev/msu407","is_oa":true,"landing_page_url":"https://doi.org/10.1093/molbev/msu407","pdf_url":"https://academic.oup.com/mbe/article-pdf/32/4/1029/17473018/msu407.pdf","source":{"id":"https://openalex.org/S57552105","display_name":"Molecular Biology and Evolution","issn_l":"0737-4038","issn":["0737-4038","1537-1719"],"is_oa":false,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-a","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1"],"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Molecular Biology and Evolution","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/mbe/article-pdf/32/4/1029/17473018/msu407.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041802940","display_name":"Mahul Chakraborty","orcid":"https://orcid.org/0000-0003-2414-9187","observed_orcids":["https://orcid.org/0000-0003-2414-9187"]},"institutions":[{"id":"https://openalex.org/I204250578","display_name":"University of California, Irvine","ror":"https://ror.org/04gyf1771","country_code":"US","type":"education","lineage":["https://openalex.org/I204250578"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Mahul Chakraborty","raw_affiliation_strings":["Department of Ecology and Evolutionary Biology, University of California, Irvine mchakrab@uci.edu","Department of Ecology and Evolutionary Biology, University of California\u2013Irvine"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Ecology and Evolutionary Biology, University of California, Irvine mchakrab@uci.edu","institution_ids":["https://openalex.org/I204250578"]},{"raw_affiliation_string":"Department of Ecology and Evolutionary Biology, University of California\u2013Irvine","institution_ids":["https://openalex.org/I204250578"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5069991959","display_name":"James D. Fry","orcid":"https://orcid.org/0000-0002-4699-3103","observed_orcids":["https://orcid.org/0000-0002-4699-3103"]},"institutions":[{"id":"https://openalex.org/I5388228","display_name":"University of Rochester","ror":"https://ror.org/022kthw22","country_code":"US","type":"education","lineage":["https://openalex.org/I5388228"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James D. Fry","raw_affiliation_strings":["Department of Biology, University of Rochester"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, University of Rochester","institution_ids":["https://openalex.org/I5388228"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5041802940"],"corresponding_institution_ids":["https://openalex.org/I204250578"],"apc_list":{"value":3418,"currency":"USD","value_usd":3418},"apc_paid":null,"fwci":0.1626,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.47918314,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":87,"max":96},"biblio":{"volume":"32","issue":"4","first_page":"1029","last_page":"1038"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.6381999850273132,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.6381999850273132,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10434","display_name":"Chromosomal and Genetic Variations","score":0.2418999969959259,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11077","display_name":"Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities","score":0.04349999874830246,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/aldehyde-dehydrogenase","display_name":"aldehyde dehydrogenase","score":0.8880000114440918},{"id":"https://openalex.org/keywords/gene-duplication","display_name":"gene duplication","score":0.8429999947547913},{"id":"https://openalex.org/keywords/testis-specific-gene-expression","display_name":"testis-specific gene expression","score":0.6759999990463257},{"id":"https://openalex.org/keywords/positive-selection","display_name":"positive selection","score":0.7210000157356262},{"id":"https://openalex.org/keywords/parallel-evolution","display_name":"parallel evolution","score":0.6079999804496765},{"id":"https://openalex.org/keywords/substrate-binding-site","display_name":"substrate binding site","score":0.7509999871253967},{"id":"https://openalex.org/keywords/substrate-specificity","display_name":"substrate specificity","score":0.9279999732971191},{"id":"https://openalex.org/keywords/intralocus-sexual-conflict","display_name":"intralocus sexual conflict","score":0.8410000205039978},{"id":"https://openalex.org/keywords/drosophila","display_name":"Drosophila","score":0.8289999961853027},{"id":"https://openalex.org/keywords/functional-divergence","display_name":"functional divergence","score":0.531000018119812}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.9008700847625732},{"id":"https://openalex.org/C25747580","wikidata":"https://www.wikidata.org/wiki/Q423792","display_name":"Aldehyde dehydrogenase","level":3,"score":0.6792291402816772},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.6079211831092834},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5809321403503418},{"id":"https://openalex.org/C7386963","wikidata":"https://www.wikidata.org/wiki/Q3954859","display_name":"Negative selection","level":4,"score":0.5000357627868652},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.4580378532409668},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.42524227499961853},{"id":"https://openalex.org/C103077935","wikidata":"https://www.wikidata.org/wiki/Q5508811","display_name":"Functional divergence","level":5,"score":0.4206121563911438},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3587634563446045},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.3023345470428467},{"id":"https://openalex.org/C5911399","wikidata":"https://www.wikidata.org/wiki/Q2278983","display_name":"Gene family","level":4,"score":0.20349320769309998},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.1459665298461914}],"mesh":[{"descriptor_ui":"D000444","descriptor_name":"Aldehyde Dehydrogenase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004330","descriptor_name":"Drosophila","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008297","descriptor_name":"Male","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013737","descriptor_name":"Testis","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020131","descriptor_name":"Genes, Duplicate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/molbev/msu407","doi":"https://doi.org/10.1093/molbev/msu407","is_oa":true,"landing_page_url":"https://doi.org/10.1093/molbev/msu407","pdf_url":"https://academic.oup.com/mbe/article-pdf/32/4/1029/17473018/msu407.pdf","source":{"id":"https://openalex.org/S57552105","display_name":"Molecular Biology and Evolution","issn_l":"0737-4038","issn":["0737-4038","1537-1719"],"is_oa":false,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-a","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1"],"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Molecular Biology and Evolution","raw_type":"journal-article"},{"id":"pmid:25564519","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25564519","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Molecular biology and evolution","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4379408","doi":null,"is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC4379408/","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Mol Biol Evol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/molbev/msu407","doi":"https://doi.org/10.1093/molbev/msu407","is_oa":true,"landing_page_url":"https://doi.org/10.1093/molbev/msu407","pdf_url":"https://academic.oup.com/mbe/article-pdf/32/4/1029/17473018/msu407.pdf","source":{"id":"https://openalex.org/S57552105","display_name":"Molecular Biology and Evolution","issn_l":"0737-4038","issn":["0737-4038","1537-1719"],"is_oa":false,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-a","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1"],"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Molecular Biology and Evolution","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G1964881238","display_name":"The Molecular Basis of Adaptive Variation in Ethanol Resistance in Drosophila melanogaster: Contribution of Aldehyde Dehydrogenase","funder_award_id":"0623268","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7600565054","display_name":"Genetic basis of clinal variation in ethanol tolerance in Drosophila melanogaster","funder_award_id":"R01AA016178","funder_id":"https://openalex.org/F4320337330","funder_display_name":"National Institute on Alcohol Abuse and Alcoholism"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320337330","display_name":"National Institute on Alcohol Abuse and Alcoholism","ror":"https://ror.org/02jzrsm59"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2072638849.pdf","grobid_xml":"https://content.openalex.org/works/W2072638849.grobid-xml"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W191281502","https://openalex.org/W1515732738","https://openalex.org/W1642251103","https://openalex.org/W1893305175","https://openalex.org/W1966242341","https://openalex.org/W1968105649","https://openalex.org/W1974375509","https://openalex.org/W1975769500","https://openalex.org/W1977152396","https://openalex.org/W1977444582","https://openalex.org/W1979399040","https://openalex.org/W1987378985","https://openalex.org/W2004798786","https://openalex.org/W2008289758","https://openalex.org/W2018217912","https://openalex.org/W2021579219","https://openalex.org/W2038464976","https://openalex.org/W2039098502","https://openalex.org/W2051359566","https://openalex.org/W2054308377","https://openalex.org/W2055821541","https://openalex.org/W2057522312","https://openalex.org/W2065375138","https://openalex.org/W2066818255","https://openalex.org/W2074529613","https://openalex.org/W2078374001","https://openalex.org/W2082338381","https://openalex.org/W2095434945","https://openalex.org/W2096390810","https://openalex.org/W2097977090","https://openalex.org/W2100305481","https://openalex.org/W2108584487","https://openalex.org/W2108626125","https://openalex.org/W2120362978","https://openalex.org/W2125102875","https://openalex.org/W2135123683","https://openalex.org/W2149717791","https://openalex.org/W2150904790","https://openalex.org/W2151409320","https://openalex.org/W2152076818","https://openalex.org/W2162594452","https://openalex.org/W2167164290","https://openalex.org/W2169623146","https://openalex.org/W2170142372","https://openalex.org/W2175218190","https://openalex.org/W2328578724","https://openalex.org/W4388310845"],"related_works":["https://openalex.org/W2100017730","https://openalex.org/W2751446000","https://openalex.org/W4232474759","https://openalex.org/W1531042093","https://openalex.org/W6949306169","https://openalex.org/W2066527785","https://openalex.org/W2051947493","https://openalex.org/W2003013670","https://openalex.org/W2118132799","https://openalex.org/W2143389463"],"abstract_inverted_index":{"A":[0],"large":[1],"proportion":[2],"of":[3,17,44,49,66,81,91,100,121,146,174,184,187,220,230],"duplicates,":[4,144],"originating":[5],"from":[6],"ubiquitously":[7],"expressed":[8,103,130],"genes,":[9],"acquire":[10],"testis-biased":[11],"expression.":[12],"Identifying":[13],"the":[14,23,30,79,92,101,147,150,165,175,182,185,188,207,217,221,231,237,240],"underlying":[15],"cause":[16],"this":[18],"observation":[19],"requires":[20],"determining":[21],"whether":[22],"duplicates":[24,50,90,99,116,223,241],"have":[25,243],"altered":[26],"functions":[27],"relative":[28,126],"to":[29,38,63,127,149,157,196],"parental":[31],"genes.":[32],"Typically,":[33],"statistical":[34,133],"methods":[35],"are":[36,56],"used":[37],"test":[39],"for":[40,72,135,205],"positive":[41,67,136],"selection,":[42],"signature":[43],"which":[45,193],"in":[46,88,111,138,142,172,212,228,234],"protein":[47],"sequence":[48],"implies":[51],"functional":[52,75,86],"divergence.":[53],"When":[54],"assumptions":[55],"violated,":[57],"however,":[58],"such":[59],"tests":[60],"can":[61],"lead":[62],"false":[64],"inference":[65],"selection.":[68],"More":[69],"convincing":[70],"evidence":[71,134],"naturally":[73],"selected":[74,209],"changes":[76,83],"would":[77],"be":[78],"occurrence":[80],"structural":[82],"with":[84,132],"similar":[85],"consequences":[87],"independent":[89],"same":[93],"gene.":[94],"We":[95],"investigated":[96],"two":[97],"testis-specific":[98,222],"broadly":[102,129],"enzyme":[104],"gene":[105],"Aldehyde":[106],"dehydrogenase":[107],"(Aldh)":[108],"that":[109,181,239],"arose":[110],"different":[112],"Drosophila":[113],"lineages.":[114],"The":[115],"show":[117],"a":[118,155],"typical":[119],"pattern":[120],"accelerated":[122],"amino":[123],"acid":[124],"substitutions":[125,211],"their":[128],"paralogs,":[131],"selection":[137],"both":[139,143],"cases.":[140],"Importantly,":[141],"width":[145],"entrance":[148],"substrate":[151,159,190,198],"binding":[152],"site,":[153],"known":[154],"priori":[156],"influence":[158],"specificity,":[160],"and":[161],"otherwise":[162],"conserved":[163],"throughout":[164],"genus":[166],"Drosophila,":[167],"has":[168],"been":[169],"reduced,":[170],"resulting":[171],"narrowing":[173],"entrance.":[176],"Protein":[177],"structure":[178],"modeling":[179],"suggests":[180],"reduction":[183,227],"size":[186],"enzyme's":[189],"entry":[191],"channel,":[192],"is":[194,203],"likely":[195],"shift":[197],"specificity":[199],"toward":[200],"smaller":[201],"aldehydes,":[202],"accounted":[204],"by":[206,226],"positively":[208],"parallel":[210],"one":[213],"duplicate":[214],"but":[215],"not":[216],"other.":[218],"Evolution":[219],"was":[224],"accompanied":[225],"expression":[229],"ancestral":[232],"Aldh":[233,250],"males,":[235],"supporting":[236],"hypothesis":[238],"may":[242],"helped":[244],"resolve":[245],"intralocus":[246],"sexual":[247],"conflict":[248],"over":[249],"function.":[251]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":1},{"year":2016,"cited_by_count":1}],"updated_date":"2026-11-13T13:42:25.865203","created_date":"2016-06-24T00:00:00"}