Comparative Genomics of Mycoplasma synoviae and New Targets for Molecular Diagnostics.
Comparative Genomics of Mycoplasma synoviae and New Targets for Molecular Diagnostics.
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DOI：
10.3389/fvets.2021.640067
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发表时间：
2021
影响因子：
3.2
通讯作者：
Zhang X
中科院分区：
文献类型：
--
作者：
Xu B;Chen X;Lu F;Sun Y;Sun H;Zhang J;Shen L;Pan Q;Liu C;Zhang X
滑液支原体是家禽的重要病原体，给家禽业造成重大的经济损失。分析了不同M.对M.并提供了有价值的分子诊断靶点，以促进M.同花种共筛选出46株菌株，其中包括6株M.从GenBank中已发表完整基因组序列和注释信息的25个主要动物（包括禽类）支原体种/亚种中分离出10株共感染支原体菌株，并将其用于比较基因组分析。经过分析，在46株菌株中发现了16个共同基因。13个单拷贝核心基因和16 s rRNA基因用于遗传进化分析。M.发现滑液支原体不仅与其他引起关节炎的支原体，而且与另一种主要的禽类病原体鸡毒支原体（Mycoplasma gallisepticum）有着遥远的进化关系，鸡毒支原体与M.滑液随后，6个独特的编码基因被确定为这些M。在具有已公布的基因组序列的其他物种中不存在的Synophylaxis菌株。发现其中两个基因位于M基因组的遗传稳定区域。滑膜炎，并确定存在于所有M。synonymus分离株（n = 20）和M.滑膜阳性的临床样本（n = 48）保存在我们的实验室。以这两个基因为分子诊断靶点，设计SYBR绿色定量PCR检测方法。两种定量PCR方法对阳性质粒对照和不同分枝杆菌基因组DNA的检测均显示出良好的重复性和特异性。滑液支原体菌株、其他主要禽类致病性细菌/支原体和低致病性支原体物种。这两个基因的检测限为每个反应10个拷贝或更少。对M阳性和阴性鸡飞节样品进行检测，其敏感性和特异性均为100%。滑膜炎本研究为进一步研究结核分枝杆菌的种间差异和分子诊断奠定了基础。滑液
Mycoplasma synoviae is an important pathogen of poultry, causing significant economic losses in this industry. Analysis of the unique genes and shared genes among different M. synoviae strains and among related species is helpful for studying the molecular pathogenesis of M. synoviae and provides valuable molecular diagnostic targets to facilitate the identification of M. synoviae species. We selected a total of 46 strains, including six M. synoviae strains, from 25 major animal (including avian) Mycoplasma species/subspecies that had complete genome sequences and annotation information published in GenBank, and used them for comparative genomic analysis. After analysis, 16 common genes were found in the 46 strains. Thirteen single-copy core genes and the 16s rRNA genes were used for genetic evolutionary analysis. M. synoviae was found to have a distant evolutionary relationship not only with other arthritis-causing mycoplasmas, but also with another major avian pathogen, Mycoplasma gallisepticum, that shares the major virulence factor vlhA with M. synoviae. Subsequently, six unique coding genes were identified as shared among these M. synoviae strains that are absent in other species with published genome sequences. Two of the genes were found to be located in the genetically stable regions of the genomes of M. synoviae and were determined to be present in all M. synoviae isolated strains (n = 20) and M. synoviae-positive clinical samples (n = 48) preserved in our laboratory. These two genes were used as molecular diagnostic targets for which SYBR green quantitative PCR detection methods were designed. The two quantitative PCR methods exhibited good reproducibility and high specificity when tested on positive plasmid controls and genomic DNA extracted from different M. synoviae strains, other major avian pathogenic bacteria/mycoplasmas, and low pathogenic Mycoplasma species. The detection limit for the two genes was 10 copies or less per reaction. The clinical sensitivity and specificity of the quantitative PCR methods were both 100% based on testing chicken hock joint samples with positive or negative M. synoviae infection. This research provides a foundation for the study of species-specific differences and molecular diagnosis of M. synoviae.
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DOI：
10.1093/bioinformatics/bts565
发表时间：
2012-12-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Fu L;Niu B;Zhu Z;Wu S;Li W
通讯作者：
Li W
影响因子：
9.4
作者：
Hu, Fang;Rishishwar, Lavanya;Wang, Xin
通讯作者：
Wang, Xin
影响因子：
3.3
作者：
Hammond, P. P.;Ramirez, A. S.;Bradbury, J. M.
通讯作者：
Bradbury, J. M.
影响因子：
2.8
作者：
Allen, JL;Noormohammadi, AH;Browning, GF
通讯作者：
Browning, GF
DOI：
10.1128/genomea.00563-15
发表时间：
2015-05-28
期刊：
Genome announcements
影响因子：
--
作者：
May MA;Kutish GF;Barbet AF;Michaels DL;Brown DR
通讯作者：
Brown DR