Burkholderia semiarida sp. nov. and Burkholderia sola sp. nov., two novel B. cepacia complex species causing onion sour skin |
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| Affiliation: | 1. Department of Agronomy, Universidade Federal Rural de Pernambuco, Recife, PE 52171-900, Brazil;2. Preventive Veterinary Medicine Departament, Veterinary School, Universidade Federal de Minas Gerais, Belo Horizonte, MG 31270-901, Brazil;3. Center of Excellence in Fungal Research, School of Science, Mae Fah Luang University, Chiang Rai 57100, Thailand;4. Department of Genetics, Universidade Federal de Pernambuco, Recife, PE 50670-901, Brazil;5. Department of Genetics, Ecology and Evolution, Universidade Federal de Minas Gerais, Belo Horizonte, MG 31270-901, Brazil;6. Department of Molecular Biology of Livestock, Institute of Veterinary Medicine, Georg August University Göttingen, 37077 Göttingen, Germany;7. Department Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, United States;8. Department of Biology, Universidade Federal Rural de Pernambuco, Recife, PE 52171-900, Brazil;1. Centre for Marine Science and Innovation, School of Biological, Earth and Environmental Sciences, University of New South Wales, Sydney, New South Wales, Australia;2. Australian Institute of Marine Science, Townsville, Queensland, Australia;3. Cawthron Institute, Nelson, New Zealand;4. Unit of Microbiome Science and Biotechnology, Department of Pharmacy and Biotechnology, University of Bologna, via Belmeloro 6, 40126 Bologna, Italy;5. University of Haifa, Haifa, Israel;6. Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, Australia;7. Australian Antarctic Division, Kingston, Tasmania, Australia;1. Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900 Viçosa, Minas Gerais, Brazil;2. Biodiversita Tecnologia Microbiana, 13148-153 Paulínia, São Paulo, Brazil;3. Laboratório de Microbiologia Ambiental, EMBRAPA Meio Ambiente, 13820-000 Jaguariúna, São Paulo, Brazil;1. Laboratory of Microbiology, Department of Biochemistry and Microbiology, Ghent University, K. L. Ledeganckstraat 35, 9000 Ghent, Belgium;2. LIPME, Université de Toulouse, INRAE, CNRS, Castanet-Tolosan, France;1. Key Laboratory of Development and Application of Rural Renewable Energy, Biogas Institute of Ministry of Agriculture and Rural Affairs, Chengdu 610041, Sichuan Province, China;2. Center for Anaerobic Microbial Resources of Sichuan Province, Chengdu 610041, China;3. Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, Jiangsu Province, China;4. National Agricultural Experimental Station for Microorganisms, Shuangliu, Chengdu 610213, Sichuan Province, China;1. Marine Microbiology Group, Department of Animal and Microbial Biodiversity, Mediterranean Institute for Advanced Studies (CSIC-UIB), 070190 Esporles, Spain;2. School of Civil and Environmental Engineering, and School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, USA;3. Department of Molecular Ecology, Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, D-28359 Bremen, Germany;1. Winogradsky Institute of Microbiology, Federal Research Centre of Biotechnology RAS, 7/2 Prospekt 60-letiya Oktyabrya, 117312 Moscow, Russia;2. Department of Biotechnology, Delft University of Technology, Delft, the Netherlands;3. Kurchatov Center for Genome Research, National Research Center “Kurchatov Institute”, 1 ac. Kurchatov square, 123098 Moscow, Russia;4. Microbiology Department, Faculty of Biology, Lomonosov Moscow State University, Leninskie Gory 1 bld. 12, 119234 Moscow, Russia |
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| Abstract: | Two putative novel Burkholderia cenocepacia lineages found in the semi-arid region of north-east Brazil causing onion sour skin were studied using genomic approaches to determine their taxonomic position. Four strains belonging to one novel lineage (CCRMBC16, CCRMBC33, CCRMBC74, and CCRMBC171) and one strain (CCRMBC51) belonging to another novel lineage had their whole genome sequenced to carry out taxogenomic analyses. The phylogenomic tree built using the type (strain) genome server (TYGS) clustered the strains CCRMBC16, CCRMBC33, CCRMBC74, and CCRMBC171 into the same clade, while grouped the strain CCRMBC51 separately. Average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) analysis showed values above 99.21 % and 93.2 %, respectively, among the strains CCRMBC16, CCRMBC33, CCRMBC74, and CCRMBC171, while ANI and dDDH values between these strains and the strain CCRMBC51 were below 94.49 % and 56.6 %, respectively. All these strains showed ANI and dDDH values below 94.78 % and 58.8 % concerning type strains of the B. cepacia complex (Bcc) species. The phylogenetic maximum likelihood tree constructed based on the multilocus sequence analysis of core genes (cMLSA) clustered the strains CCRMBC16, CCRMBC33, CCRMBC74, and CCRMBC171 and the strain CCRMBC51 in two exclusive clades, which did not cluster with any known species of the Bcc. Therefore, combined data from TYGS, ANI, dDDH, and cMLSA demonstrated that the strains represent two novel species of the Bcc, which we classified as Burkholderia semiarida sp. nov. and Burkholderia sola sp. nov., and proposed the strains CCRMBC74T (=IBSBF 3371 T = CBAS 905 T) and CCRMBC51T (=IBSBF3370T = CBAS 904 T) as type strains, respectively. |
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| Keywords: | Novel species Onion diseases Taxogenomic approach |
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