唐菖蒲伯克霍尔德菌椰毒致病型菌株Co14毒力相关基因解析
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摘要
目的了解1株引起致死性食物中毒事件的唐菖蒲伯克霍尔德菌椰毒致病型菌株Co14的全基因组序列特征,对其基因组中米酵菌酸(BA)和毒黄素(TF)的生物合成相关基因进行了预测和分析。方法通过第三代高通量测序技术(PacBio)对Co14进行全基因组测序,使用BLAST软件预测BA和TF的生物合成相关基因。结果 Co14基因组中含有2个闭合的环状染色体,大小分别为4.1和4.0 Mb,鸟嘌呤和胞嘧啶所占比例(GC含量)分别为67.82%和68.32%。Co14基因组中还携带有一个146 kb的闭合环状质粒,GC含量为63.25%,编码149个基因。通过同源序列比对,在Co14染色体1上发现了BA和TF的生物合成相关基因簇bonR1R2LJKFGABDEHIM和toxRABCDE。结论 Co14全基因组数据为研究唐菖蒲伯克霍尔德菌食物中毒菌株的致病性和毒力因子产生机制奠定了遗传学基础。
Objective This study was to understand the whole genomic characteristics of a foodborne pathogen Burkholderia gladioli pv.cocovenenans strain Co14, and also to predict and analyze the biosynthesis genes of its virulence factors bongkrekic acid(BA) and toxoflavin(TF). Methods The whole genome sequencing of Co14 was sequenced by the third generation high-throughput sequencing technology(PacBio).The biosynthesis genes of BA and TF were predicted by BLAST in the whole genome sequences. Results Two independent closed circle chromosomes were found in the whole genome sequence of Co14. The lengths of the two chromosomes were 4.1 and 4.0 Mb and their GC contents were 67.82% and 68.32%, respectively. A 146 kb completed plasmid was found in the genome, which GC content was 63.25% and it encoded 149 genes. In the sequence of chromosomes 1, BA biosynthesis related gene cluster bonR1R2LJKFGABDEHIM and TF biosynthesis related gene cluster toxRABCDE were found. Conclusion The whole genome sequence of Co14 laid a genetic foundation for further study of the pathogenicity and virulence factor biosynthesis mechanisms of foodborne pathogen Burkholderia gladioli pv.cocovenenans.
Objective This study was to understand the whole genomic characteristics of a foodborne pathogen Burkholderia gladioli pv.cocovenenans strain Co14, and also to predict and analyze the biosynthesis genes of its virulence factors bongkrekic acid(BA) and toxoflavin(TF). Methods The whole genome sequencing of Co14 was sequenced by the third generation high-throughput sequencing technology(PacBio).The biosynthesis genes of BA and TF were predicted by BLAST in the whole genome sequences. Results Two independent closed circle chromosomes were found in the whole genome sequence of Co14. The lengths of the two chromosomes were 4.1 and 4.0 Mb and their GC contents were 67.82% and 68.32%, respectively. A 146 kb completed plasmid was found in the genome, which GC content was 63.25% and it encoded 149 genes. In the sequence of chromosomes 1, BA biosynthesis related gene cluster bonR1R2LJKFGABDEHIM and TF biosynthesis related gene cluster toxRABCDE were found. Conclusion The whole genome sequence of Co14 laid a genetic foundation for further study of the pathogenicity and virulence factor biosynthesis mechanisms of foodborne pathogen Burkholderia gladioli pv.cocovenenans.
引文
[1] 刘秀梅.我国椰毒假单胞菌酵米面亚种食物中毒流行趋势浅析[J]. 中华预防医学杂志,1996,30(6): 372-374.
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[3] 沈莹, 刘军, 黄兆勇, 等. 1990—2006年广西酵米面食物中毒流行病学分析[J]. 中国热带医学, 2007, 7 (5):814-815.
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[5] 黄月娟, 李萍. 26例酵玉米面中毒的急救护理[J]. 现代医药卫生, 2005, 21 (18): 2524-2525.
[6] 王岗, 郭云昌, 裴晓燕.米酵菌酸的生物合成及其机制研究进展[J]. 卫生研究, 2012, 41 (2): 341-344.
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[8] KIM J H, OH J, CHOI O, et al. Biochemical evidence for ToxR and ToxJ binding to the tox operons of Burkholderia glumae and mutational analysis of ToxR[J]. J Bacteriol, 2009, 191(15): 4870-4878.
[9] 王岗,郭云昌,杜春明, 等.椰毒假单胞菌酵米面亚种荧光标记扩增片段长度多态性分型方法的建立[J]. 中国食品卫生杂志, 2013, 25 (2):125-131.
[10] CHIN C S, ALEXANDER D H, MARKS P, et al. Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data[J]. Nat Methods, 2013, 10(6):563-569.
[11] PENG Z X, LI M H, WANG W, et al. Genomic insights into the pathogenicity and environmental adaptability of Enterococcus hirae R17 isolated from pork offered for retail sale[J]. Microbiologyopen, 2017,6(6):e514.
[12] LARSEN M V, COSENTINO S, LUKJANCENKO O, et al. Benchmarking of methods for genomic taxonomy[J]. J Clin Microbiol, 2014, 52(5):1529-1539.
[13] HASMAN H, SAPUTRA D, SICHERITZ-PONTEN T, et al. Rapid whole-genome sequencing for detection and characterization of microorganisms directly from clinical samples[J]. J Clin Microbiol, 2014, 52(1):139-146.
[14] CAMACHO C, COULOURIS G, AVAGVAN V, et al. BLAST+: architecture and applications[J]. BMC Bioinformatics,2009, 10(1):421.
[15] 杜春明, 焦振泉, 郭云昌, 等.唐菖蒲伯克霍尔德菌菌体脂肪酸成分测定与分析[J]. 卫生研究, 2005, 34 (5): 613-616.
[16] 焦振泉, 曹玮, 余东敏, 等. 椰酵假单胞菌与唐菖蒲伯克霍尔德菌16S～23S rRNA基因间区序列的比较研究[J]. 中国食品卫生杂志, 2008, 20(3): 197-203.
[17] HIGGINS S, SANCHEZ-CONTRERAS M, GUALD S, et al. The essential genome of Burkholderia cenocepacia h111[J].J Bacteriol,2017, 199(22):JB.00260-17.
[18] BOCHKAREVA O O, MOROZ EV, DAVYDOV I I, et al. Genome evolution in Burkholderia spp[J].BioRxiv, 2018:319723.
[19] ROHM B, SCHERLACH K, HERTWECK C. Biosynthesis of the mitochondrial adenine nucleotide translocase (ATPase) inhibitor bongkrekic acid in Burkholderia gladioli[J]. Org Biomol Chem, 2010, 8(7): 1520-1522.
[20] KIM J H, KIM J G, KANG Y S, et al. Quorum sensing and the LysR-type transcriptional activator ToxR regulate toxoflavin biosynthesis and transport in Burkholderia glumae[J]. Mol Microbio, 2004, 54(4): 921-934.
[21] 田凤丽, 马麦生, 钱震雯, 等.椰酵伯菌毒黄素的研究进展[J]. 医学综述, 2007, 13 (23): 1822-1824.
[22] ZHOU F, NING H, CHEN F, et al. Burkholderia gladioli infection isolated from the blood cultures of newborns in the neonatal intensive care unit[J]. Eur J Clin Micr, 2015, 34(8):1533-1537.Analyzing the virulence factor biosynthesis genes of a foodborne pathogen Burkholderia gladioli pv. cocovenenans strain Co14 PENG Zixin,CHEN Xue,LI Menghan,et al(558)
[2] 中华人民共和国卫生部,中国国家标准化管理委员会. 食品卫生微生物学检验椰毒假单胞菌酵米面亚种检验:GB/T 4789.29—2003 [S].北京:中国标准出版社,2003.
[3] 沈莹, 刘军, 黄兆勇, 等. 1990—2006年广西酵米面食物中毒流行病学分析[J]. 中国热带医学, 2007, 7 (5):814-815.
[4] 柳智豪.百色市7起酵米面食物中毒流行病学分析[J]. 广西医科大学学报, 2005, 22 (6): 982-983.
[5] 黄月娟, 李萍. 26例酵玉米面中毒的急救护理[J]. 现代医药卫生, 2005, 21 (18): 2524-2525.
[6] 王岗, 郭云昌, 裴晓燕.米酵菌酸的生物合成及其机制研究进展[J]. 卫生研究, 2012, 41 (2): 341-344.
[7] MOEBIUS N, ROSS C, SCHERLACH K, et al. Biosynthesis of the respiratory toxin bongkrekic acid in the pathogenic bacterium Burkholderia gladioli[J]. Chem Boil, 2012, 19(9): 1164-1174.
[8] KIM J H, OH J, CHOI O, et al. Biochemical evidence for ToxR and ToxJ binding to the tox operons of Burkholderia glumae and mutational analysis of ToxR[J]. J Bacteriol, 2009, 191(15): 4870-4878.
[9] 王岗,郭云昌,杜春明, 等.椰毒假单胞菌酵米面亚种荧光标记扩增片段长度多态性分型方法的建立[J]. 中国食品卫生杂志, 2013, 25 (2):125-131.
[10] CHIN C S, ALEXANDER D H, MARKS P, et al. Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data[J]. Nat Methods, 2013, 10(6):563-569.
[11] PENG Z X, LI M H, WANG W, et al. Genomic insights into the pathogenicity and environmental adaptability of Enterococcus hirae R17 isolated from pork offered for retail sale[J]. Microbiologyopen, 2017,6(6):e514.
[12] LARSEN M V, COSENTINO S, LUKJANCENKO O, et al. Benchmarking of methods for genomic taxonomy[J]. J Clin Microbiol, 2014, 52(5):1529-1539.
[13] HASMAN H, SAPUTRA D, SICHERITZ-PONTEN T, et al. Rapid whole-genome sequencing for detection and characterization of microorganisms directly from clinical samples[J]. J Clin Microbiol, 2014, 52(1):139-146.
[14] CAMACHO C, COULOURIS G, AVAGVAN V, et al. BLAST+: architecture and applications[J]. BMC Bioinformatics,2009, 10(1):421.
[15] 杜春明, 焦振泉, 郭云昌, 等.唐菖蒲伯克霍尔德菌菌体脂肪酸成分测定与分析[J]. 卫生研究, 2005, 34 (5): 613-616.
[16] 焦振泉, 曹玮, 余东敏, 等. 椰酵假单胞菌与唐菖蒲伯克霍尔德菌16S～23S rRNA基因间区序列的比较研究[J]. 中国食品卫生杂志, 2008, 20(3): 197-203.
[17] HIGGINS S, SANCHEZ-CONTRERAS M, GUALD S, et al. The essential genome of Burkholderia cenocepacia h111[J].J Bacteriol,2017, 199(22):JB.00260-17.
[18] BOCHKAREVA O O, MOROZ EV, DAVYDOV I I, et al. Genome evolution in Burkholderia spp[J].BioRxiv, 2018:319723.
[19] ROHM B, SCHERLACH K, HERTWECK C. Biosynthesis of the mitochondrial adenine nucleotide translocase (ATPase) inhibitor bongkrekic acid in Burkholderia gladioli[J]. Org Biomol Chem, 2010, 8(7): 1520-1522.
[20] KIM J H, KIM J G, KANG Y S, et al. Quorum sensing and the LysR-type transcriptional activator ToxR regulate toxoflavin biosynthesis and transport in Burkholderia glumae[J]. Mol Microbio, 2004, 54(4): 921-934.
[21] 田凤丽, 马麦生, 钱震雯, 等.椰酵伯菌毒黄素的研究进展[J]. 医学综述, 2007, 13 (23): 1822-1824.
[22] ZHOU F, NING H, CHEN F, et al. Burkholderia gladioli infection isolated from the blood cultures of newborns in the neonatal intensive care unit[J]. Eur J Clin Micr, 2015, 34(8):1533-1537.Analyzing the virulence factor biosynthesis genes of a foodborne pathogen Burkholderia gladioli pv. cocovenenans strain Co14 PENG Zixin,CHEN Xue,LI Menghan,et al(558)
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