The mitochondrial genome of Parascaris univalens--implications for a "forgotten" parasite.
The mitochondrial genome of Parascaris univalens--implications for a "forgotten" parasite.
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帕斯卡里斯单相的线粒体基因组 - 寄生虫“被遗忘”的象征。
DOI：
10.1186/1756-3305-7-428
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发表时间：
2014-09-04
影响因子：
3.2
通讯作者：
Gasser RB
中科院分区：
文献类型：
--
作者：
Jabbar A;Littlewood DT;Mohandas N;Briscoe AG;Foster PG;Müller F;von Samson-Himmelstjerna G;Jex AR;Gasser RB
单价副蛔虫是马科动物的一种蛔虫。关于其在国内和野马种群中的流行病学和种群遗传学知之甚少。基于PCR的方法适合支持这些领域的研究，前提是使用可靠的遗传标记。最近的研究表明，线粒体（mt）基因组标记是适用于这些方法，但没有这样的标记已被定义为单价磷。通过长PCR从单价对虾卵分离的总基因组DNA扩增Mt基因组区域，并使用Illumina技术进行测序。mt基因组是使用已建立的生物信息学管道组装和注释的。从所有蛋白质编码基因的mt基因组推断的氨基酸序列进行了比较，从其他蛔虫，串联序列进行系统发育分析贝叶斯推断。环状线粒体基因组全长13,920 bp，包含2个核糖体RNA、12个蛋白质编码基因和22个转运RNA基因，与其它蛔虫一致。系统发育分析表明，单价疟原虫与蛔虫和蛔虫的亲缘关系最近。suum，排除其他蛔虫。代表单价疟原虫的mt基因组现在为这种寄生虫及其同源物马疟原虫的遗传学和流行病学的未来研究提供了丰富的遗传标记来源。这一重点是重要的，因为没有发表的资料，具体流行率和分布的普氏univalens感染在国内和野马种群。本文的在线版本（doi：10.1186/1756-3305-7-428）包含补充材料，可供授权用户使用。
Parascaris univalens is an ascaridoid nematode of equids. Little is known about its epidemiology and population genetics in domestic and wild horse populations. PCR-based methods are suited to support studies in these areas, provided that reliable genetic markers are used. Recent studies have shown that mitochondrial (mt) genomic markers are applicable in such methods, but no such markers have been defined for P. univalens. Mt genome regions were amplified from total genomic DNA isolated from P. univalens eggs by long-PCR and sequenced using Illumina technology. The mt genome was assembled and annotated using an established bioinformatic pipeline. Amino acid sequences inferred from all protein-encoding genes of the mt genomes were compared with those from other ascaridoid nematodes, and concatenated sequences were subjected to phylogenetic analysis by Bayesian inference. The circular mt genome was 13,920 bp in length and contained two ribosomal RNA, 12 protein-coding and 22 transfer RNA genes, consistent with those of other ascaridoids. Phylogenetic analysis of the concatenated amino acid sequence data for the 12 mt proteins showed that P. univalens was most closely related to Ascaris lumbricoides and A. suum, to the exclusion of other ascaridoids. This mt genome representing P. univalens now provides a rich source of genetic markers for future studies of the genetics and epidemiology of this parasite and its congener, P. equorum. This focus is significant, given that there is no published information on the specific prevalence and distribution of P. univalens infection in domestic and wild horse populations. The online version of this article (doi:10.1186/1756-3305-7-428) contains supplementary material, which is available to authorized users.
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Biopython：用于计算分子生物学和生物信息学的免费 Python 工具。
DOI：
10.1093/bioinformatics/btp163
发表时间：
2009-06-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Cock PJ;Antao T;Chang JT;Chapman BA;Cox CJ;Dalke A;Friedberg I;Hamelryck T;Kauff F;Wilczynski B;de Hoon MJ
通讯作者：
de Hoon MJ
影响因子：
1.3
作者：
Craig, T. M.;Diamond, P. L.;Thompson, J. A.
通讯作者：
Thompson, J. A.
影响因子：
1.6
作者：
GODAY, C;PIMPINELLI, S
通讯作者：
PIMPINELLI, S
影响因子：
2.6
作者：
Gasser, RB
通讯作者：
Gasser, RB
DOI：
10.1016/s0749-0739(17)30718-6
发表时间：
1986-08-01
影响因子：
1.1
作者：
CLAYTON, HM
通讯作者：
CLAYTON, HM