{"id":"https://openalex.org/W4388726257","doi":"https://doi.org/10.1371/journal.ppat.1011801","title":"Combined reference-free and multi-reference based GWAS uncover cryptic variation underlying rapid adaptation in a fungal plant pathogen","display_name":"Combined reference-free and multi-reference based GWAS uncover cryptic variation underlying rapid adaptation in a fungal plant pathogen","publication_year":2023,"publication_date":"2023-11-16","ids":{"openalex":"https://openalex.org/W4388726257","doi":"https://doi.org/10.1371/journal.ppat.1011801","pmid":"https://pubmed.ncbi.nlm.nih.gov/37972199","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/10688896"},"language":"en","primary_location":{"id":"doi:10.1371/journal.ppat.1011801","doi":"https://doi.org/10.1371/journal.ppat.1011801","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.ppat.1011801","pdf_url":"https://journals.plos.org/plospathogens/article/file?id=10.1371/journal.ppat.1011801&type=printable","source":{"id":"https://openalex.org/S2004986","display_name":"PLoS Pathogens","issn_l":"1553-7366","issn":["1553-7366","1553-7374"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-a","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Pathogens","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/plospathogens/article/file?id=10.1371/journal.ppat.1011801&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5034723472","display_name":"Anik Dutta","orcid":"https://orcid.org/0000-0003-1196-6305","observed_orcids":["https://orcid.org/0000-0003-1196-6305"]},"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"]},{"id":"https://openalex.org/I4405254264","display_name":"Institute of Integrative Biology","ror":"https://ror.org/01kwjhv40","country_code":"CH","type":"facility","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088","https://openalex.org/I4405254264"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Anik Dutta","raw_affiliation_strings":["Plant Pathology, Institute of Integrative Biology, ETH Zurich, Zurich, Switzerland"],"raw_orcid":"https://orcid.org/0000-0003-1196-6305","affiliations":[{"raw_affiliation_string":"Plant Pathology, Institute of Integrative Biology, ETH Zurich, Zurich, Switzerland","institution_ids":["https://openalex.org/I35440088","https://openalex.org/I4405254264"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056400720","display_name":"Bruce Alan McDonald","orcid":"https://orcid.org/0000-0002-5332-2172","observed_orcids":["https://orcid.org/0000-0002-5332-2172"]},"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"]},{"id":"https://openalex.org/I4405254264","display_name":"Institute of Integrative Biology","ror":"https://ror.org/01kwjhv40","country_code":"CH","type":"facility","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088","https://openalex.org/I4405254264"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Bruce A. McDonald","raw_affiliation_strings":["Plant Pathology, Institute of Integrative Biology, ETH Zurich, Zurich, Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-5332-2172","affiliations":[{"raw_affiliation_string":"Plant Pathology, Institute of Integrative Biology, ETH Zurich, Zurich, Switzerland","institution_ids":["https://openalex.org/I35440088","https://openalex.org/I4405254264"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5027850387","display_name":"Daniel Croll","orcid":"https://orcid.org/0000-0002-2072-380X","observed_orcids":["https://orcid.org/0000-0002-2072-380X"]},"institutions":[{"id":"https://openalex.org/I57825437","display_name":"University of Neuch\u00e2tel","ror":"https://ror.org/00vasag41","country_code":"CH","type":"education","lineage":["https://openalex.org/I57825437"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Daniel Croll","raw_affiliation_strings":["Laboratory of Evolutionary Genetics, Institute of Biology, University of Neuch\u00e2tel, 2000 Neuch\u00e2tel, Switzerland","Laboratory of Evolutionary Genetics, Institute of Biology, University of Neuch\u00e2tel, Neuch\u00e2tel, Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-2072-380X","affiliations":[{"raw_affiliation_string":"Laboratory of Evolutionary Genetics, Institute of Biology, University of Neuch\u00e2tel, 2000 Neuch\u00e2tel, Switzerland","institution_ids":["https://openalex.org/I57825437"]},{"raw_affiliation_string":"Laboratory of Evolutionary Genetics, Institute of Biology, University of Neuch\u00e2tel, Neuch\u00e2tel, Switzerland","institution_ids":["https://openalex.org/I57825437"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5027850387"],"corresponding_institution_ids":["https://openalex.org/I57825437"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":2.5504,"has_fulltext":true,"cited_by_count":21,"citation_normalized_percentile":{"value":0.91220936,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":88,"max":99},"biblio":{"volume":"19","issue":"11","first_page":"e1011801","last_page":"e1011801"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.29660001397132874,"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/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.29660001397132874,"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/T10825","display_name":"Plant Pathogens and Fungal Diseases","score":0.13510000705718994,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10733","display_name":"Wheat and Barley Genetics and Pathology","score":0.12430000305175781,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/zymoseptoria-tritici","display_name":"Zymoseptoria tritici","score":0.9890000224113464},{"id":"https://openalex.org/keywords/plant-pathogenic-fungi","display_name":"plant pathogenic fungi","score":0.8299999833106995},{"id":"https://openalex.org/keywords/rapid-adaptation","display_name":"rapid adaptation","score":0.7609999775886536},{"id":"https://openalex.org/keywords/genome-wide-association-study","display_name":"genome-wide association study","score":0.5889999866485596},{"id":"https://openalex.org/keywords/virulence","display_name":"virulence","score":0.6830000281333923},{"id":"https://openalex.org/keywords/life-history-traits","display_name":"life-history traits","score":0.9259999990463257},{"id":"https://openalex.org/keywords/pathogen-adaptation","display_name":"pathogen adaptation","score":0.4050000011920929}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7646148204803467},{"id":"https://openalex.org/C106208931","wikidata":"https://www.wikidata.org/wiki/Q1098876","display_name":"Genome-wide association study","level":5,"score":0.7273678183555603},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6214228868484497},{"id":"https://openalex.org/C192953774","wikidata":"https://www.wikidata.org/wiki/Q7307127","display_name":"Reference genome","level":4,"score":0.6116540431976318},{"id":"https://openalex.org/C9287583","wikidata":"https://www.wikidata.org/wiki/Q5532883","display_name":"Genetic architecture","level":4,"score":0.606706440448761},{"id":"https://openalex.org/C68873052","wikidata":"https://www.wikidata.org/wiki/Q349856","display_name":"Genetic variation","level":3,"score":0.5893971920013428},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.558438241481781},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5283646583557129},{"id":"https://openalex.org/C139807058","wikidata":"https://www.wikidata.org/wiki/Q352374","display_name":"Adaptation (eye)","level":2,"score":0.4961572587490082},{"id":"https://openalex.org/C151020129","wikidata":"https://www.wikidata.org/wiki/Q7625067","display_name":"Structural variation","level":4,"score":0.48949992656707764},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.44489210844039917},{"id":"https://openalex.org/C81977670","wikidata":"https://www.wikidata.org/wiki/Q585259","display_name":"Genetic diversity","level":3,"score":0.4266486167907715},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.4212772250175476},{"id":"https://openalex.org/C81941488","wikidata":"https://www.wikidata.org/wiki/Q853421","display_name":"Quantitative trait locus","level":3,"score":0.2897283434867859},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14193519949913025},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.12473198771476746},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.10496726632118225},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.0},{"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":[{"descriptor_ui":"D000073537","descriptor_name":"Biological Variation, Population","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.ppat.1011801","doi":"https://doi.org/10.1371/journal.ppat.1011801","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.ppat.1011801","pdf_url":"https://journals.plos.org/plospathogens/article/file?id=10.1371/journal.ppat.1011801&type=printable","source":{"id":"https://openalex.org/S2004986","display_name":"PLoS Pathogens","issn_l":"1553-7366","issn":["1553-7366","1553-7374"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-a","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Pathogens","raw_type":"journal-article"},{"id":"doi:10.1101/2022.05.16.492091","doi":"https://doi.org/10.1101/2022.05.16.492091","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2022.05.16.492091","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2022/05/17/2022.05.16.492091.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,"listed_in":[],"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-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},{"id":"pmh:oai:pubmedcentral.nih.gov:10688896","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10688896","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10688896/pdf/ppat.1011801.pdf","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Pathog","raw_type":"Text"},{"id":"pmid:37972199","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37972199","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":"PLoS pathogens","raw_type":"Journal Article"},{"id":"pmh:oai:doaj.org/article:21487b8496f544a5894d42f5898726e9","doi":null,"is_oa":true,"landing_page_url":"https://doaj.org/article/21487b8496f544a5894d42f5898726e9","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Pathogens, Vol 19, Iss 11, p e1011801 (2023)","raw_type":"article"},{"id":"pmh:oai:www.research-collection.ethz.ch:20.500.11850/647253","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.11850/647253","pdf_url":null,"source":{"id":"https://openalex.org/S4306402302","display_name":"Repository for Publications and Research Data (ETH Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I35440088","host_organization_name":"ETH Zurich","host_organization_lineage":["https://openalex.org/I35440088"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Pathogens, 19 (11)","raw_type":"info:eu-repo/semantics/article"},{"id":"doi:10.3929/ethz-b-000647253","doi":"https://doi.org/10.3929/ethz-b-000647253","is_oa":true,"landing_page_url":"https://doi.org/10.3929/ethz-b-000647253","pdf_url":null,"source":{"id":"https://openalex.org/S7407051236","display_name":"ETH Z\u00fcrich Research Collection","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.1371/journal.ppat.1011801","doi":"https://doi.org/10.1371/journal.ppat.1011801","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.ppat.1011801","pdf_url":"https://journals.plos.org/plospathogens/article/file?id=10.1371/journal.ppat.1011801&type=printable","source":{"id":"https://openalex.org/S2004986","display_name":"PLoS Pathogens","issn_l":"1553-7366","issn":["1553-7366","1553-7374"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-a","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Pathogens","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Zero hunger","id":"https://metadata.un.org/sdg/2","score":0.40450000762939453}],"study_designs":[],"awards":[{"id":"https://openalex.org/G3560755966","display_name":null,"funder_award_id":"627000640","funder_id":"https://openalex.org/F4320326464","funder_display_name":"Bundesamt f\u00fcr Landwirtschaft"}],"funders":[{"id":"https://openalex.org/F4320326464","display_name":"Bundesamt f\u00fcr Landwirtschaft","ror":"https://ror.org/04mk29570"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4388726257.pdf","grobid_xml":"https://content.openalex.org/works/W4388726257.grobid-xml"},"referenced_works_count":114,"referenced_works":["https://openalex.org/W331013611","https://openalex.org/W566471755","https://openalex.org/W746467347","https://openalex.org/W1584241287","https://openalex.org/W1842924979","https://openalex.org/W1895017250","https://openalex.org/W1955935893","https://openalex.org/W1973012451","https://openalex.org/W1973346181","https://openalex.org/W1980168725","https://openalex.org/W1984106926","https://openalex.org/W1997401532","https://openalex.org/W2008047653","https://openalex.org/W2025816689","https://openalex.org/W2033151532","https://openalex.org/W2060335717","https://openalex.org/W2091963315","https://openalex.org/W2099728576","https://openalex.org/W2102619694","https://openalex.org/W2110808585","https://openalex.org/W2119180969","https://openalex.org/W2119924680","https://openalex.org/W2120029762","https://openalex.org/W2124985265","https://openalex.org/W2127684760","https://openalex.org/W2131271579","https://openalex.org/W2137037625","https://openalex.org/W2141916112","https://openalex.org/W2142193590","https://openalex.org/W2142678478","https://openalex.org/W2149992227","https://openalex.org/W2150550043","https://openalex.org/W2151177060","https://openalex.org/W2153744765","https://openalex.org/W2155107698","https://openalex.org/W2160378127","https://openalex.org/W2161633633","https://openalex.org/W2163250554","https://openalex.org/W2163320297","https://openalex.org/W2168704508","https://openalex.org/W2170551349","https://openalex.org/W2171414364","https://openalex.org/W2212640525","https://openalex.org/W2221207286","https://openalex.org/W2230059391","https://openalex.org/W2234032519","https://openalex.org/W2236319430","https://openalex.org/W2256152883","https://openalex.org/W2345733559","https://openalex.org/W2415678262","https://openalex.org/W2550355336","https://openalex.org/W2580023202","https://openalex.org/W2586311463","https://openalex.org/W2618971062","https://openalex.org/W2765671382","https://openalex.org/W2775206780","https://openalex.org/W2788650779","https://openalex.org/W2795395985","https://openalex.org/W2796062936","https://openalex.org/W2798064943","https://openalex.org/W2799881328","https://openalex.org/W2803484106","https://openalex.org/W2900896766","https://openalex.org/W2904148516","https://openalex.org/W2912990896","https://openalex.org/W2915215930","https://openalex.org/W2924485771","https://openalex.org/W2944862449","https://openalex.org/W2949477823","https://openalex.org/W2950417030","https://openalex.org/W2950419643","https://openalex.org/W2950526549","https://openalex.org/W2952363540","https://openalex.org/W2952528518","https://openalex.org/W2997518568","https://openalex.org/W3006008703","https://openalex.org/W3007172120","https://openalex.org/W3007570075","https://openalex.org/W3015761667","https://openalex.org/W3023072829","https://openalex.org/W3029954871","https://openalex.org/W3033648611","https://openalex.org/W3041530105","https://openalex.org/W3042744518","https://openalex.org/W3074416739","https://openalex.org/W3091890154","https://openalex.org/W3093220132","https://openalex.org/W3100619679","https://openalex.org/W3101528127","https://openalex.org/W3106627638","https://openalex.org/W3113040348","https://openalex.org/W3118363245","https://openalex.org/W3123276597","https://openalex.org/W3125215968","https://openalex.org/W3125268557","https://openalex.org/W3126068847","https://openalex.org/W3131225712","https://openalex.org/W3134382826","https://openalex.org/W3136308181","https://openalex.org/W3163493854","https://openalex.org/W3164673579","https://openalex.org/W3167270036","https://openalex.org/W3174979540","https://openalex.org/W3195931277","https://openalex.org/W3199195377","https://openalex.org/W3201779999","https://openalex.org/W4210282527","https://openalex.org/W4214758475","https://openalex.org/W4220827000","https://openalex.org/W4220897484","https://openalex.org/W4225941942","https://openalex.org/W4254687493","https://openalex.org/W4297474865","https://openalex.org/W4311350599"],"related_works":["https://openalex.org/W4280641982","https://openalex.org/W7154472806","https://openalex.org/W4289781977","https://openalex.org/W2783222708","https://openalex.org/W3125268557","https://openalex.org/W2539213747","https://openalex.org/W2604150378","https://openalex.org/W4388812784","https://openalex.org/W2799881328","https://openalex.org/W2580023202"],"abstract_inverted_index":{"Microbial":[0],"pathogens":[1,210],"often":[2],"harbor":[3],"substantial":[4],"functional":[5],"diversity":[6,98],"driven":[7],"by":[8,215],"structural":[9,218],"genetic":[10,35,59,79,139,219],"variation.":[11,60,220],"Rapid":[12],"adaptation":[13,238],"from":[14],"such":[15],"standing":[16],"variation":[17,80,186],"threatens":[18],"global":[19,126],"food":[20],"security":[21],"and":[22,48,72,149,192,231],"human":[23],"health.":[24],"Genome-wide":[25],"association":[26,90],"studies":[27],"(GWAS)":[28],"provide":[29],"a":[30,66,107,118,164,181,188,226],"powerful":[31],"approach":[32,111,179,191,222],"to":[33,82,202,225],"identify":[34],"variants":[36],"underlying":[37],"recent":[38],"pathogen":[39,133],"adaptation.":[40],"However,":[41],"the":[42,54,97,100,104,125,130,138,177],"reliance":[43],"on":[44],"single":[45,49,83],"reference":[46,70,84,159,189],"genomes":[47,71,95],"nucleotide":[50],"polymorphisms":[51],"(SNPs)":[52],"obscures":[53],"true":[55],"extent":[56],"of":[57,68,99,120,129,141,157,184,206,229,239],"adaptive":[58],"Here,":[61],"we":[62],"show":[63],"quantitatively":[64],"how":[65],"combination":[67],"multiple":[69,152],"reference-free":[73,108],"approaches":[74,200],"captures":[75],"substantially":[76],"more":[77],"relevant":[78],"compared":[81],"mapping.":[85],"We":[86,102,136],"performed":[87],"reference-genome":[88],"based":[89],"mapping":[91],"across":[92,124],"19":[93],"reference-quality":[94],"covering":[96],"species.":[101],"contrasted":[103],"results":[105],"with":[106],"(i.e.,":[109],"k-mer)":[110],"using":[112],"raw":[113],"whole-genome":[114],"sequencing":[115],"data":[116],"in":[117,151,168,208],"panel":[119],"145":[121],"strains":[122],"collected":[123],"distribution":[127],"range":[128],"fungal":[131],"wheat":[132],"Zymoseptoria":[134],"tritici.":[135],"mapped":[137,171],"architecture":[140],"49":[142],"life":[143],"history":[144],"traits":[145],"including":[146],"virulence,":[147],"reproduction":[148],"growth":[150],"stressful":[153],"environments.":[154],"The":[155,204],"inclusion":[156],"additional":[158,169],"genome":[160],"SNP":[161],"datasets":[162],"provides":[163],"nearly":[165],"linear":[166],"increase":[167],"loci":[170,196],"through":[172,176],"GWAS.":[173],"Variants":[174],"detected":[175],"k-mer":[178],"explained":[180],"higher":[182],"proportion":[183],"phenotypic":[185],"than":[187],"genome-based":[190],"revealed":[193],"functionally":[194],"confirmed":[195],"that":[197],"classic":[198],"GWAS":[199,207],"failed":[201],"map.":[203],"power":[205],"microbial":[209],"can":[211],"be":[212],"significantly":[213],"enhanced":[214],"comprehensively":[216],"capturing":[217],"Our":[221],"is":[223],"generalizable":[224],"large":[227],"number":[228],"species":[230],"will":[232],"uncover":[233],"novel":[234],"mechanisms":[235],"driving":[236],"rapid":[237],"pathogens.":[240]},"counts_by_year":[{"year":2026,"cited_by_count":9},{"year":2025,"cited_by_count":10},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1}],"updated_date":"2026-11-09T13:22:03.289127","created_date":"2023-11-17T00:00:00"}
