{"id":"https://openalex.org/W3047579082","doi":"https://doi.org/10.1201/9780429397547-28","title":"Phylogenomics and the Tree of Life","display_name":"Phylogenomics and the Tree of Life","publication_year":2020,"publication_date":"2020-08-05","ids":{"openalex":"https://openalex.org/W3047579082","doi":"https://doi.org/10.1201/9780429397547-28","mag":"3047579082"},"language":"en","primary_location":{"id":"doi:10.1201/9780429397547-28","doi":"https://doi.org/10.1201/9780429397547-28","is_oa":false,"landing_page_url":"https://doi.org/10.1201/9780429397547-28","pdf_url":null,"source":{"id":"https://openalex.org/S4306463075","display_name":"CRC Press eBooks","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/P4310320584","host_organization_name":"CRC Press","host_organization_lineage":["https://openalex.org/P4310320584","https://openalex.org/P4310320547"],"host_organization_lineage_names":["CRC Press","Taylor & Francis"],"type":"ebook platform"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Phylogenomics","raw_type":"book-chapter"},"volume":{"id":"https://openalex.org/W4248574580","display_name":"Phylogenomics"},"type":"book-chapter","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5011665083","display_name":"Rob DeSalle","orcid":"https://orcid.org/0000-0002-6490-7109","observed_orcids":["https://orcid.org/0000-0002-6490-7109"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Rob DeSalle","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065277725","display_name":"Michael Tessler","orcid":"https://orcid.org/0000-0001-7870-433X","observed_orcids":["https://orcid.org/0000-0001-7870-433X"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Michael Tessler","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5034922709","display_name":"Jeffrey Rosenfeld","orcid":"https://orcid.org/0000-0002-8750-2841","observed_orcids":["https://orcid.org/0000-0002-8750-2841"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jeffrey Rosenfeld","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.14745743,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"311","last_page":"329"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9990000128746033,"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"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9990000128746033,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.0005000000237487257,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11879","display_name":"Protist diversity and phylogeny","score":9.999999747378752e-05,"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/phylogenomics","display_name":"phylogenomics","score":0.9890000224113464},{"id":"https://openalex.org/keywords/tree-of-life","display_name":"tree of life","score":0.9340000152587891},{"id":"https://openalex.org/keywords/bacterial-phylogeny","display_name":"bacterial phylogeny","score":0.9419999718666077},{"id":"https://openalex.org/keywords/supertree-methods","display_name":"supertree methods","score":0.7480000257492065},{"id":"https://openalex.org/keywords/grafting","display_name":"grafting","score":0.7059999704360962},{"id":"https://openalex.org/keywords/matrix-representation","display_name":"matrix representation","score":0.7459999918937683},{"id":"https://openalex.org/keywords/divide-and-conquer","display_name":"divide-and-conquer","score":0.8659999966621399},{"id":"https://openalex.org/keywords/metagenomics","display_name":"metagenomics","score":0.8230000138282776},{"id":"https://openalex.org/keywords/whole-genome-sequencing","display_name":"whole genome sequencing","score":0.7549999952316284}],"concepts":[{"id":"https://openalex.org/C70343354","wikidata":"https://www.wikidata.org/wiki/Q3381973","display_name":"Phylogenomics","level":5,"score":0.8350975513458252},{"id":"https://openalex.org/C124388736","wikidata":"https://www.wikidata.org/wiki/Q3247497","display_name":"Tree of life (biology)","level":4,"score":0.748143196105957},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.5441979765892029},{"id":"https://openalex.org/C95457728","wikidata":"https://www.wikidata.org/wiki/Q309","display_name":"History","level":0,"score":0.35324257612228394},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27598392963409424},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0937483012676239},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.06870770454406738},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.028745651245117188},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C44465124","wikidata":"https://www.wikidata.org/wiki/Q713623","display_name":"Clade","level":4,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1201/9780429397547-28","doi":"https://doi.org/10.1201/9780429397547-28","is_oa":false,"landing_page_url":"https://doi.org/10.1201/9780429397547-28","pdf_url":null,"source":{"id":"https://openalex.org/S4306463075","display_name":"CRC Press eBooks","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/P4310320584","host_organization_name":"CRC Press","host_organization_lineage":["https://openalex.org/P4310320584","https://openalex.org/P4310320547"],"host_organization_lineage_names":["CRC Press","Taylor & Francis"],"type":"ebook platform"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Phylogenomics","raw_type":"book-chapter"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":1,"referenced_works":["https://openalex.org/W2620704987"],"related_works":["https://openalex.org/W2126723504","https://openalex.org/W1565974998","https://openalex.org/W2129322534","https://openalex.org/W648879837","https://openalex.org/W2156668042","https://openalex.org/W6986355193","https://openalex.org/W4394824551","https://openalex.org/W2173095102","https://openalex.org/W4295079381","https://openalex.org/W1997697005"],"abstract_inverted_index":{"Sequencing":[0],"approaches":[1,19,62,121],"for":[2,23,40],"biodiversity":[3],"studies":[4,82],"include":[5],"shallow":[6],"targeted":[7],"sequencing,":[8],"expressed":[9],"sequence":[10],"tag":[11],"approaches,":[12],"and":[13,26,42],"whole":[14],"genome":[15,18],"approaches.":[16],"Whole":[17],"have":[20],"been":[21],"used":[22,48],"yeast,":[24],"flies,":[25],"bacteria.":[27],"Bacterial":[28],"phylogenomics":[29],"poses":[30],"specific":[31],"problems:":[32],"whether":[33,43],"a":[34,50,68,71,88,96,109,130],"tree":[35],"of":[36,56,73,98,126],"life":[37],"really":[38],"exists":[39],"bacteria,":[41],"all":[44],"genes":[45],"can":[46],"be":[47,84],"in":[49,80,87,129],"concatenated":[51],"analysis.":[52],"When":[53],"the":[54,124],"number":[55],"taxa":[57],"becomes":[58],"unmanageable,":[59],"various":[60],"supertree":[61,89],"are":[63,114],"used.":[64],"Grafting":[65],"breaks":[66],"down":[67],"problem":[69],"into":[70],"series":[72,97],"smaller":[74],"problems.":[75],"Matrix":[76],"representation":[77],"allows":[78],"trees":[79],"different":[81],"to":[83,105,122],"linked":[85],"together":[86],"matrix":[90],"that":[91],"summarizes":[92],"each":[93],"subtree":[94],"as":[95],"nodes.":[99],"The":[100],"divide-and-conquer":[101],"approach":[102],"is":[103],"similar":[104],"grafting,":[106],"but":[107],"no":[108],"priori":[110],"assumptions":[111],"about":[112],"relationships":[113],"made.":[115],"Metagenomics":[116],"uses":[117],"high-throughput":[118],"DNA":[119],"sequencing":[120],"identify":[123],"majority":[125],"microbe":[127],"species":[128],"sample":[131],"without":[132],"culturing":[133],"individual":[134],"species.":[135]},"counts_by_year":[],"updated_date":"2026-10-10T09:11:00.788812","created_date":"2020-08-10T00:00:00"}