{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,23]],"date-time":"2026-10-23T20:53:32Z","timestamp":1792788812965,"version":"4.5.0"},"reference-count":49,"publisher":"Public Library of Science (PLoS)","issue":"9","license":[{"start":{"date-parts":[[2026,9,21]],"date-time":"2026-09-21T00:00:00Z","timestamp":1789948800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100008762","name":"Genome Canada","doi-asserted-by":"publisher","award":["LSP18-16302"],"award-info":[{"award-number":["LSP18-16302"]}],"id":[{"id":"10.13039\/100008762","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100009370","name":"Western Grains Research Foundation","doi-asserted-by":"publisher","award":["GC1903"],"award-info":[{"award-number":["GC1903"]}],"id":[{"id":"10.13039\/100009370","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008921","name":"Ministry of Agriculture - Saskatchewan","doi-asserted-by":"publisher","award":["20200026"],"award-info":[{"award-number":["20200026"]}],"id":[{"id":"10.13039\/100008921","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Enhancing the Value of Lentil Variation for Ecosystem Survival (EVOLVES) project"},{"name":"UVM Food Systems Research Center Genotype \u00d7 Environment \u00d7 Management grant","id":[{"id":"https:\/\/ror.org\/00s95t029","id-type":"ROR","asserted-by":"crossref"}]},{"name":"USDA Multistate Hatch NE2210"},{"DOI":"10.13039\/100004349","name":"BASF","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100004349","id-type":"DOI","asserted-by":"publisher"}]},{"name":"the University of Saskatchewan","id":[{"id":"https:\/\/ror.org\/010x8gc63","id-type":"ROR","asserted-by":"crossref"}]}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS One"],"abstract":"<jats:p>\n                    Chromosome structural rearrangements play a significant role in karyotype evolution and speciation. These rearrangements pose challenges for precise karyotyping and the assembly of a genus pan-genome for crops and their wild relatives.\n                    <jats:italic>Lens culinaris<\/jats:italic>\n                    , an important cool-season legume primarily grown in India and Canada, is a cultivated species with six wild relatives. All seven\n                    <jats:italic>Lens<\/jats:italic>\n                    species exhibit distinct chromosomal arrangements, which affect introgression and complicate the development of an accurate karyotype for the genus. Using gene synteny analysis between the cultivated\n                    <jats:italic>Lens<\/jats:italic>\n                    species and six wild relatives, we developed cross-species oligo-FISH (Fluorescent\n                    <jats:italic>in situ<\/jats:italic>\n                    hybridization) probes to\n                    <jats:italic>in situ<\/jats:italic>\n                    confirm genome assemblies and synteny. Chromosome spreads were used for oligo-FISH experiments, in which the DNA was denatured and a set of red and green oligo probes was hybridized to the metaphase chromosomes. The combination of both oligo sets\/probes resulted in a distinct pattern for each\n                    <jats:italic>Lens<\/jats:italic>\n                    spp. chromosome, allowing the inference of a more robust karyotype for six\n                    <jats:italic>Lens<\/jats:italic>\n                    species. The karyotyping of\n                    <jats:italic>Lens<\/jats:italic>\n                    spp. confirmed the proper assignment of chromosomes in the genome assemblies and validated the rearrangements detected in the synteny analysis. The results attest to a higher sequence-level similarity among the closest related species despite the occurrence of several chromosomal structural changes among them. Oligo-FISH probes can be used in conjunction with plant genome assembly projects, supporting the delivery of a precise representation of the physical chromosomes of a species.\n                  <\/jats:p>","DOI":"10.1371\/journal.pone.0354141","type":"journal-article","created":{"date-parts":[[2026,9,21]],"date-time":"2026-09-21T17:26:00Z","timestamp":1790011560000},"page":"e0354141","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":0,"title":["Comparative oligo-FISH validates genome assemblies and delivers a precise karyotype for Lens Mill. species"],"prefix":"10.1371","volume":"21","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3074-1729","authenticated-orcid":true,"given":"Alex Junior Aparecido","family":"Silvestrini","sequence":"first","affiliation":[{"name":"College of Agriculture and Bioresources, University of Saskatchewan","place":["Saskatoon, Canada"],"department":["Department of Plant Sciences"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Larissa","family":"Ramsay","sequence":"additional","affiliation":[{"name":"College of Agriculture and Bioresources, University of Saskatchewan","place":["Saskatoon, Canada"],"department":["Department of Plant Sciences"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Eric Bishop","family":"von Wettberg","sequence":"additional","affiliation":[{"name":"University of Vermont","place":["Burlington, United States of America"],"department":["Department of Agriculture and Life Sciences and Gund Institute for the Environment"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7959-6959","authenticated-orcid":true,"given":"Kirstin E.","family":"Bett","sequence":"additional","affiliation":[{"name":"College of Agriculture and Bioresources, University of Saskatchewan","place":["Saskatoon, Canada"],"department":["Department of Plant Sciences"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"340","published-online":{"date-parts":[[2026,9,21]]},"reference":[{"issue":"3","key":"pone.0354141.ref001","doi-asserted-by":"crossref","first-page":"315","DOI":"10.1093\/jhered\/esr015","article-title":"Leveraging genomic resources of model species for the assessment of diversity and phylogeny in wild and domesticated lentil","volume":"102","author":"F Alo","year":"2011","journal-title":"J Hered"},{"issue":"5","key":"pone.0354141.ref002","doi-asserted-by":"crossref","DOI":"10.1002\/cpz1.134","article-title":"Intelligent characterization of lentil genetic resources: evolutionary history, genetic diversity of germplasm, and the need for well-represented collections","volume":"1","author":"A Guerra-Garc\u00eda","year":"2021","journal-title":"Curr Protoc"},{"issue":"11","key":"pone.0354141.ref003","doi-asserted-by":"crossref","first-page":"1846","DOI":"10.3732\/ajb.91.11.1846","article-title":"A phylogeny of legumes (Leguminosae) based on analysis of the plastid matK gene resolves many well-supported subclades within the family","volume":"91","author":"MF Wojciechowski","year":"2004","journal-title":"Am J Bot"},{"issue":"6","key":"pone.0354141.ref004","doi-asserted-by":"crossref","first-page":"1118","DOI":"10.1139\/g03-077","article-title":"Distribution of highly repeated DNA sequences in species of the genus Lens Miller","volume":"46","author":"I Galasso","year":"2003","journal-title":"Genome"},{"key":"pone.0354141.ref005","unstructured":"Ritche H, Rosado P, Roser M. Agricultural production. 2023."},{"issue":"2","key":"pone.0354141.ref006","article-title":"Understanding genome structure facilitates the use of wild lentil germplasm for breeding: a case study with shattering loci","volume":"17","author":"Z Cao","year":"2024","journal-title":"Plant Genome"},{"key":"pone.0354141.ref007","doi-asserted-by":"crossref","first-page":"78","DOI":"10.3389\/fpls.2015.00078","article-title":"Current knowledge in lentil genomics and its application for crop improvement","volume":"6","author":"S Kumar","year":"2015","journal-title":"Front Plant Sci"},{"key":"pone.0354141.ref008","doi-asserted-by":"crossref","first-page":"136922","DOI":"10.1016\/j.foodchem.2023.136922","article-title":"B vitamin quantification in lentil seed tissues using ultra-performance liquid chromatography-selected reaction monitoring mass spectrometry","volume":"430","author":"J Marshall","year":"2024","journal-title":"Food Chem"},{"key":"pone.0354141.ref009","unstructured":"Singh RJ. 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