title: Genome characterization of a novel Burkholderia cepacia complex genomovar isolated from dieback affected mango orchards.
abstract: We characterized the genome of the antibiotic resistant, caseinolytic and non-hemolytic Burkholderia sp. strain TJI49, isolated from mango trees (Mangifera indica L.) with dieback disease. This isolate produced severe disease symptoms on the indicator plants. Next generation DNA sequencing and short-read assembly generated the 60X deep 7,631,934 nucleotide draft genome of Burkholderia sp. TJI49 which comprised three chromosomes and at least one mega plasmid. Genome annotation studies revealed a total 8,992 genes, out of which 8,940 were protein coding genes. Comparative genomics and phylogenetics identified Burkholderia sp. TJI49 as a distinct species of Burkholderia cepacia complex (BCC), closely related to B. multivorans ATCC17616. Genome-wide sequence alignment of this isolate with replicons of BCC members showed conservation of core function genes but considerable variations in accessory genes. Subsystem-based gene annotation identified the active presence of wide spread colonization island and type VI secretion system in Burkholderia sp. TJI49. Sequence comparisons revealed (a) 28 novel ORFs that have no database matches and (b) 23 ORFs with orthologues in species other than Burkholderia, indicating horizontal gene transfer events. Fold recognition of novel ORFs identified genes encoding pertactin autotransporter-like proteins (a constituent of type V secretion system) and Hap adhesion-like proteins (involved in cell-cell adhesion) in the genome of Burkholderia sp. TJI49. The genomic characterization of this isolate provided additional information related to the 'pan-genome' of Burkholderia species.
authors: Jamil-ur-Rahman Center for Genome Research, International Center for Chemical and Biological Sciences, University of Karachi, Karachi, 75270, Pakistan.
authors: Asifullah
authors: A
authors: Khan
authors: Huma
authors: H
authors: Asif
authors: David J
authors: DJ
authors: Studholme
authors: Ishtiaq A
authors: IA
authors: Khan
authors: M Kamran
authors: MK
authors: Azim
mesh_terms: D001425:Bacterial Outer Membrane Proteins / Q000737:chemistry; D001426:Bacterial Proteins / Q000737:chemistry; D015373:Bacterial Typing Techniques; D042602:Burkholderia cepacia complex / Q000235:genetics* / Q000302:isolation & purification* / Q000378:metabolism; D019143:Evolution, Molecular; D016680:Genome, Bacterial; D023281:Genomics / Q000379:methods; D006090:Gram-Negative Bacteria / Q000235:genetics / Q000302:isolation & purification; D006193:Haemophilus influenzae / Q000235:genetics / Q000378:metabolism; D059014:High-Throughput Nucleotide Sequencing; D031022:Mangifera / Q000382:microbiology*; D008958:Models, Molecular; D058977:Molecular Sequence Annotation; D010802:Phylogeny; D010935:Plant Diseases / Q000382:microbiology*; D017433:Protein Structure, Secondary; D016415:Sequence Alignment; D012697:Serine Endopeptidases / Q000737:chemistry; D037521:Virulence Factors / Q000235:genetics / Q000378:metabolism
chemical_list: D001425:Bacterial Outer Membrane Proteins; D001426:Bacterial Proteins; C091552:Hap protein, Hemophilus influenzae; D037521:Virulence Factors; D012697:Serine Endopeptidases
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