{"id":"https://openalex.org/W4200217795","doi":"https://doi.org/10.1101/2021.12.07.471551","title":"A target capture approach for phylogenomic analyses at multiple evolutionary timescales in rosewoods ( <i>Dalbergia</i> spp.) and the legume family (Fabaceae)","display_name":"A target capture approach for phylogenomic analyses at multiple evolutionary timescales in rosewoods ( <i>Dalbergia</i> spp.) and the legume family (Fabaceae)","publication_year":2021,"publication_date":"2021-12-07","ids":{"openalex":"https://openalex.org/W4200217795","doi":"https://doi.org/10.1101/2021.12.07.471551"},"language":"en","primary_location":{"id":"doi:10.1101/2021.12.07.471551","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2021.12.07.471551","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2021/12/07/2021.12.07.471551.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"type":"preprint","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.biorxiv.org/content/biorxiv/early/2021/12/07/2021.12.07.471551.full.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5048642741","display_name":"Simon Crameri","orcid":"https://orcid.org/0000-0002-5516-1018"},"institutions":[{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Simon Crameri","raw_affiliation_strings":["Institute of Integrative Biology, ETH Zurich, Z\u00fcrich, Switzerland"],"affiliations":[{"raw_affiliation_string":"Institute of Integrative Biology, ETH Zurich, Z\u00fcrich, Switzerland","institution_ids":["https://openalex.org/I35440088"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081540828","display_name":"Simone Fior","orcid":"https://orcid.org/0000-0003-1173-1477"},"institutions":[{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Simone Fior","raw_affiliation_strings":["Institute of Integrative Biology, ETH Zurich, Z\u00fcrich, Switzerland"],"affiliations":[{"raw_affiliation_string":"Institute of Integrative Biology, ETH Zurich, Z\u00fcrich, Switzerland","institution_ids":["https://openalex.org/I35440088"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089205418","display_name":"Stefan Zoller","orcid":null},"institutions":[{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Stefan Zoller","raw_affiliation_strings":["Genetic Diversity Centre (GDC), ETH Zurich, Z\u00fcrich, Switzerland","Institute of Integrative Biology, ETH Zurich, Z\u00fcrich, Switzerland"],"affiliations":[{"raw_affiliation_string":"Genetic Diversity Centre (GDC), ETH Zurich, Z\u00fcrich, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"Institute of Integrative Biology, ETH Zurich, Z\u00fcrich, Switzerland","institution_ids":["https://openalex.org/I35440088"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5075053284","display_name":"Alex Widmer","orcid":"https://orcid.org/0000-0001-8253-5137"},"institutions":[{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Alex Widmer","raw_affiliation_strings":["Institute of Integrative Biology, ETH Zurich, Z\u00fcrich, Switzerland"],"affiliations":[{"raw_affiliation_string":"Institute of Integrative Biology, ETH Zurich, Z\u00fcrich, Switzerland","institution_ids":["https://openalex.org/I35440088"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5048642741","https://openalex.org/A5075053284"],"corresponding_institution_ids":["https://openalex.org/I35440088"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10012","display_name":"Genetic diversity and population structure","score":0.9991000294685364,"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/T10012","display_name":"Genetic diversity and population structure","score":0.9991000294685364,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9987999796867371,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"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/T14049","display_name":"Plant and Fungal Species Descriptions","score":0.9983000159263611,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"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/biology","display_name":"Biology","score":0.7537306547164917},{"id":"https://openalex.org/keywords/dalbergia","display_name":"Dalbergia","score":0.6688187718391418},{"id":"https://openalex.org/keywords/fabaceae","display_name":"Fabaceae","score":0.6527082920074463},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.6290409564971924},{"id":"https://openalex.org/keywords/genetic-diversity","display_name":"Genetic diversity","score":0.5188626050949097},{"id":"https://openalex.org/keywords/phylogenomics","display_name":"Phylogenomics","score":0.48775726556777954},{"id":"https://openalex.org/keywords/clade","display_name":"Clade","score":0.4838053584098816},{"id":"https://openalex.org/keywords/monophyly","display_name":"Monophyly","score":0.42355209589004517},{"id":"https://openalex.org/keywords/systematics","display_name":"Systematics","score":0.41607147455215454},{"id":"https://openalex.org/keywords/phylogenetics","display_name":"Phylogenetics","score":0.3877621293067932},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.3672224283218384},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.32393625378608704},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.16445589065551758},{"id":"https://openalex.org/keywords/taxonomy","display_name":"Taxonomy (biology)","score":0.14189261198043823},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11968696117401123}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7537306547164917},{"id":"https://openalex.org/C2780303144","wikidata":"https://www.wikidata.org/wiki/Q1370281","display_name":"Dalbergia","level":2,"score":0.6688187718391418},{"id":"https://openalex.org/C2780900450","wikidata":"https://www.wikidata.org/wiki/Q44448","display_name":"Fabaceae","level":2,"score":0.6527082920074463},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.6290409564971924},{"id":"https://openalex.org/C81977670","wikidata":"https://www.wikidata.org/wiki/Q585259","display_name":"Genetic diversity","level":3,"score":0.5188626050949097},{"id":"https://openalex.org/C70343354","wikidata":"https://www.wikidata.org/wiki/Q3381973","display_name":"Phylogenomics","level":5,"score":0.48775726556777954},{"id":"https://openalex.org/C44465124","wikidata":"https://www.wikidata.org/wiki/Q713623","display_name":"Clade","level":4,"score":0.4838053584098816},{"id":"https://openalex.org/C12326286","wikidata":"https://www.wikidata.org/wiki/Q210958","display_name":"Monophyly","level":5,"score":0.42355209589004517},{"id":"https://openalex.org/C41806617","wikidata":"https://www.wikidata.org/wiki/Q3516404","display_name":"Systematics","level":3,"score":0.41607147455215454},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.3877621293067932},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.3672224283218384},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.32393625378608704},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.16445589065551758},{"id":"https://openalex.org/C58642233","wikidata":"https://www.wikidata.org/wiki/Q8269924","display_name":"Taxonomy (biology)","level":2,"score":0.14189261198043823},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11968696117401123},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1101/2021.12.07.471551","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2021.12.07.471551","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2021/12/07/2021.12.07.471551.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"}],"best_oa_location":{"id":"doi:10.1101/2021.12.07.471551","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2021.12.07.471551","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2021/12/07/2021.12.07.471551.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"sustainable_development_goals":[{"score":0.7599999904632568,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321652","display_name":"Eidgen\u00f6ssische Technische Hochschule Z\u00fcrich","ror":"https://ror.org/05a28rw58"},{"id":"https://openalex.org/F4320323874","display_name":"Universit\u00e4t Z\u00fcrich","ror":"https://ror.org/02crff812"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4200217795.pdf","grobid_xml":"https://content.openalex.org/works/W4200217795.grobid-xml"},"referenced_works_count":88,"referenced_works":["https://openalex.org/W1767772592","https://openalex.org/W1887892324","https://openalex.org/W1888392170","https://openalex.org/W1967566382","https://openalex.org/W1970014809","https://openalex.org/W1973235805","https://openalex.org/W1996111406","https://openalex.org/W2004444667","https://openalex.org/W2012114194","https://openalex.org/W2015146292","https://openalex.org/W2015835354","https://openalex.org/W2016603972","https://openalex.org/W2038511295","https://openalex.org/W2045366837","https://openalex.org/W2066289589","https://openalex.org/W2087064593","https://openalex.org/W2097706568","https://openalex.org/W2102619694","https://openalex.org/W2103441770","https://openalex.org/W2116585889","https://openalex.org/W2120902911","https://openalex.org/W2122302865","https://openalex.org/W2126419817","https://openalex.org/W2128755327","https://openalex.org/W2133212095","https://openalex.org/W2133980123","https://openalex.org/W2134285566","https://openalex.org/W2137058328","https://openalex.org/W2137756176","https://openalex.org/W2141052558","https://openalex.org/W2142678478","https://openalex.org/W2145562754","https://openalex.org/W2146290595","https://openalex.org/W2147299002","https://openalex.org/W2149992227","https://openalex.org/W2150023008","https://openalex.org/W2157371227","https://openalex.org/W2157701114","https://openalex.org/W2158152955","https://openalex.org/W2160378127","https://openalex.org/W2163023674","https://openalex.org/W2175537914","https://openalex.org/W2177517284","https://openalex.org/W2188547234","https://openalex.org/W2211504288","https://openalex.org/W2462976181","https://openalex.org/W2467118550","https://openalex.org/W2471796229","https://openalex.org/W2473818600","https://openalex.org/W2480462312","https://openalex.org/W2568583042","https://openalex.org/W2582743722","https://openalex.org/W2589015405","https://openalex.org/W2591630414","https://openalex.org/W2595920996","https://openalex.org/W2613640836","https://openalex.org/W2733740235","https://openalex.org/W2765865112","https://openalex.org/W2795236109","https://openalex.org/W2795542554","https://openalex.org/W2801361050","https://openalex.org/W2883251903","https://openalex.org/W2889019462","https://openalex.org/W2929679098","https://openalex.org/W2941832029","https://openalex.org/W2950352437","https://openalex.org/W2951890991","https://openalex.org/W2966990932","https://openalex.org/W2967082561","https://openalex.org/W2977757413","https://openalex.org/W2982685450","https://openalex.org/W2990427812","https://openalex.org/W3007669493","https://openalex.org/W3030766928","https://openalex.org/W3031878336","https://openalex.org/W3082905211","https://openalex.org/W3107403134","https://openalex.org/W3172541900","https://openalex.org/W3172969518","https://openalex.org/W3173675330","https://openalex.org/W3175381429","https://openalex.org/W3178118501","https://openalex.org/W3178130895","https://openalex.org/W3179055131","https://openalex.org/W3179668167","https://openalex.org/W3184832094","https://openalex.org/W3201978329","https://openalex.org/W4200217795"],"related_works":["https://openalex.org/W2907711672","https://openalex.org/W2351356357","https://openalex.org/W1000975905","https://openalex.org/W2524041121","https://openalex.org/W338911408","https://openalex.org/W3131992635","https://openalex.org/W2329088943","https://openalex.org/W3123223612","https://openalex.org/W2568583042","https://openalex.org/W3172969518"],"abstract_inverted_index":{"Abstract":[0],"Understanding":[1],"the":[2,7,60,75,110,123,134,172,181,192,199,219,222,244],"genetic":[3,22,30],"changes":[4],"associated":[5,57],"with":[6,58],"evolution":[8],"of":[9,13,21,28,62,77,91,102,109,125,146,158,174,183,201,213,221,243],"biological":[10],"diversity":[11,182],"is":[12,45],"fundamental":[14],"interest":[15],"to":[16,36,49],"molecular":[17],"ecologists.":[18],"The":[19,224],"assessment":[20],"variation":[23],"at":[24,191],"hundreds":[25],"or":[26],"thousands":[27],"unlinked":[29],"loci":[31,81],"forms":[32],"a":[33,100,140,175],"sound":[34],"basis":[35],"address":[37,95],"questions":[38],"ranging":[39],"from":[40,69,149],"micro-to":[41],"macro-evolutionary":[42],"timescales,":[43],"and":[44,80,83,115,138,154,170,204,227,234,240,247],"now":[46],"possible":[47],"thanks":[48],"advances":[50],"in":[51,238],"sequencing":[52],"technology.":[53],"Major":[54],"difficulties":[55],"are":[56],"i)":[59],"lack":[61],"genomic":[63,162,226],"resources":[64,229],"for":[65,87,106,130],"many":[66,205],"taxa,":[67],"especially":[68,217],"tropical":[70],"biodiversity":[71],"hotspots,":[72],"ii)":[73],"scaling":[74],"numbers":[76],"individuals":[78],"analyzed":[79],"sequenced,":[82],"iii)":[84],"building":[85],"tools":[86],"reproducible":[88],"bioinformatic":[89],"analyses":[90,145,163],"such":[92],"datasets.":[93],"To":[94],"these":[96],"challenges,":[97],"we":[98],"developed":[99],"set":[101,129],"target":[103,131],"capture":[104,132],"probes":[105],"phylogenomic":[107],"studies":[108],"highly":[111,152,245],"diverse,":[112],"pantropically":[113],"distributed":[114],"economically":[116],"significant":[117],"rosewoods":[118],"(":[119],"Dalbergia":[120,147,185,249],"spp.),":[121],"explored":[122],"performance":[124],"an":[126],"overlapping":[127],"probe":[128],"across":[133],"legume":[135],"family":[136,193],"(Fabaceae),":[137],"built":[139],"general-purpose":[141],"bioinformatics":[142,228],"pipeline.":[143],"Phylogenomic":[144],"species":[148,169,186],"Madagascar":[150],"yielded":[151],"resolved":[153],"well":[155,209],"supported":[156],"hypotheses":[157],"evolutionary":[159],"relationships.":[160],"Population":[161],"identified":[164],"differences":[165],"between":[166],"closely":[167],"related":[168],"revealed":[171],"existence":[173],"potentially":[176],"new":[177,225],"species,":[178],"suggesting":[179],"that":[180],"Malagasy":[184],"has":[187],"been":[188],"underestimated.":[189],"Analyses":[190],"level":[194],"corroborated":[195],"previous":[196],"findings":[197],"by":[198],"recovery":[200],"monophyletic":[202],"subfamilies":[203],"well-known":[206],"clades,":[207],"as":[208,210],"high":[211],"levels":[212],"gene":[214],"tree":[215],"discordance,":[216],"near":[218],"root":[220],"family.":[223],"will":[230],"hopefully":[231],"advance":[232],"systematics":[233],"ecological":[235],"genetics":[236],"research":[237],"legumes,":[239],"promote":[241],"conservation":[242],"diverse":[246],"endangered":[248],"rosewoods.":[250]},"counts_by_year":[{"year":2021,"cited_by_count":1}],"updated_date":"2026-03-25T13:04:00.132906","created_date":"2025-10-10T00:00:00"}
