{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,11,4]],"date-time":"2025-11-04T16:11:37Z","timestamp":1762272697518,"version":"build-2065373602"},"reference-count":73,"publisher":"MDPI AG","issue":"3","license":[{"start":{"date-parts":[[2021,3,17]],"date-time":"2021-03-17T00:00:00Z","timestamp":1615939200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001871","name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","doi-asserted-by":"publisher","award":["PTDC\/BIA-EVF\/ 3635\/2014-POCI-01-0145-FEDER-016600;SFRH\/BD\/95913\/2013; SFRH\/BD\/137079\/2018"],"award-info":[{"award-number":["PTDC\/BIA-EVF\/ 3635\/2014-POCI-01-0145-FEDER-016600;SFRH\/BD\/95913\/2013; SFRH\/BD\/137079\/2018"]}],"id":[{"id":"10.13039\/501100001871","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100010661","name":"Horizon 2020 Framework Programme","doi-asserted-by":"publisher","award":["grant agreement 668981 and 857251"],"award-info":[{"award-number":["grant agreement 668981 and 857251"]}],"id":[{"id":"10.13039\/100010661","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100011929","name":"Programa Operacional Tem\u00e1tico Factores de Competitividade","doi-asserted-by":"publisher","award":["PORBIOTA- POCI-01-0145-FEDER-022127"],"award-info":[{"award-number":["PORBIOTA- POCI-01-0145-FEDER-022127"]}],"id":[{"id":"10.13039\/501100011929","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000921","name":"European Cooperation in Science and Technology","doi-asserted-by":"publisher","award":["COST Action CA16107 EuroXanth"],"award-info":[{"award-number":["COST Action CA16107 EuroXanth"]}],"id":[{"id":"10.13039\/501100000921","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100018929","name":"German Network for Bioinformatics Infrastructure","doi-asserted-by":"publisher","award":["BMBF grant FKZ031A533"],"award-info":[{"award-number":["BMBF grant FKZ031A533"]}],"id":[{"id":"10.13039\/501100018929","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Microorganisms"],"abstract":"<jats:p>The recent report of distinct Xanthomonas lineages of Xanthomonas arboricola pv. juglandis and Xanthomonas euroxanthea within the same walnut tree revealed that this consortium of walnut-associated Xanthomonas includes both pathogenic and nonpathogenic strains. As the implications of this co-colonization are still poorly understood, in order to unveil niche-specific adaptations, the genomes of three X. euroxanthea strains (CPBF 367, CPBF 424T, and CPBF 426) and of an X. arboricola pv. juglandis strain (CPBF 427) isolated from a single walnut tree in Loures (Portugal) were sequenced with two different technologies, Illumina and Nanopore, to provide consistent single scaffold chromosomal sequences. General genomic features showed that CPBF 427 has a genome similar to other X. arboricola pv. juglandis strains, regarding its size, number, and content of CDSs, while X. euroxanthea strains show a reduction regarding these features comparatively to X. arboricola pv. juglandis strains. Whole genome comparisons revealed remarkable genomic differences between X. arboricola pv. juglandis and X. euroxanthea strains, which translates into different pathogenicity and virulence features, namely regarding type 3 secretion system and its effectors and other secretory systems, chemotaxis-related proteins, and extracellular enzymes. Altogether, the distinct genomic repertoire of X. euroxanthea may be particularly useful to address pathogenicity emergence and evolution in walnut-associated Xanthomonas.<\/jats:p>","DOI":"10.3390\/microorganisms9030624","type":"journal-article","created":{"date-parts":[[2021,3,17]],"date-time":"2021-03-17T21:43:31Z","timestamp":1616017411000},"page":"624","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":14,"title":["Comparative Genomics of Xanthomonas euroxanthea and Xanthomonas arboricola pv. juglandis Strains Isolated from a Single Walnut Host Tree"],"prefix":"10.3390","volume":"9","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7566-1255","authenticated-orcid":false,"given":"Camila","family":"Fernandes","sequence":"first","affiliation":[{"name":"CIBIO\u2014Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO-Laborat\u00f3rio Associado, Universidade do Porto, Rua Padre Armando Quintas 7, 4485-661 Vair\u00e3o, Portugal"},{"name":"FCUP\u2014Departamento de Biologia, Faculdade de Ci\u00eancias, Universidade do Porto, Rua do Campo Alegre, 4169-007 Porto, Portugal"},{"name":"Unidade Estrat\u00e9gica de Investiga\u00e7\u00e3o e Servi\u00e7os de Sistemas Agr\u00e1rios e Florestais e Sanidade Vegetal, INIAV, Avenida da Rep\u00fablica, Quinta do Marqu\u00eas, 2780-157 Oeiras, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5400-2923","authenticated-orcid":false,"given":"Leonor","family":"Martins","sequence":"additional","affiliation":[{"name":"CIBIO\u2014Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO-Laborat\u00f3rio Associado, Universidade do Porto, Rua Padre Armando Quintas 7, 4485-661 Vair\u00e3o, Portugal"},{"name":"FCUP\u2014Departamento de Biologia, Faculdade de Ci\u00eancias, Universidade do Porto, Rua do Campo Alegre, 4169-007 Porto, Portugal"}]},{"given":"Miguel","family":"Teixeira","sequence":"additional","affiliation":[{"name":"CIBIO\u2014Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO-Laborat\u00f3rio Associado, Universidade do Porto, Rua Padre Armando Quintas 7, 4485-661 Vair\u00e3o, Portugal"},{"name":"FCUP\u2014Departamento de Biologia, Faculdade de Ci\u00eancias, Universidade do Porto, Rua do Campo Alegre, 4169-007 Porto, Portugal"}]},{"given":"Jochen","family":"Blom","sequence":"additional","affiliation":[{"name":"Bioinformatics and Systems Biology, Justus-Liebig University Giessen, Ludwigstra\u00dfe 23, 35390 Giessen, Germany"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9604-7780","authenticated-orcid":false,"given":"Jo\u00ebl F.","family":"Pothier","sequence":"additional","affiliation":[{"name":"Environmental Genomics and Systems Biology Research Group, Institute for Natural Resource Sciences, Zurich University of Applied Sciences (ZHAW), Einsiedlerstrasse 31, 8820 W\u00e4denswil, Switzerland"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4832-578X","authenticated-orcid":false,"given":"Nuno A.","family":"Fonseca","sequence":"additional","affiliation":[{"name":"CIBIO\u2014Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO-Laborat\u00f3rio Associado, Universidade do Porto, Rua Padre Armando Quintas 7, 4485-661 Vair\u00e3o, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9913-1155","authenticated-orcid":false,"given":"Fernando","family":"Tavares","sequence":"additional","affiliation":[{"name":"CIBIO\u2014Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO-Laborat\u00f3rio Associado, Universidade do Porto, Rua Padre Armando Quintas 7, 4485-661 Vair\u00e3o, Portugal"},{"name":"FCUP\u2014Departamento de Biologia, Faculdade de Ci\u00eancias, Universidade do Porto, Rua do Campo Alegre, 4169-007 Porto, Portugal"}]}],"member":"1968","published-online":{"date-parts":[[2021,3,17]]},"reference":[{"key":"ref_1","first-page":"177","article-title":"On the systematic position and generic names of the Gram negative bacterial plant pathogens","volume":"100","author":"Dowson","year":"1939","journal-title":"Zentralblatt Fur Bakteriol. 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