Defining species specific genome differences in malaria parasites.
Defining species specific genome differences in malaria parasites.
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DOI：
10.1186/1471-2164-11-128
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发表时间：
2010-02-23
期刊：
影响因子：
4.4
通讯作者：
Peter PR
中科院分区：
文献类型：
--
作者：
Liew KJ;Hu G;Bozdech Z;Peter PR
近年来，不同疟原虫物种的一些基因组序列已经成为可能。这使得能够在不同物种中识别出许多保守的基因，并极大地增强了我们对寄生虫生物学的理解。相比之下，人们对不同基因组之间的物种特异性差异知之甚少，部分原因是序列复盖率较低，因此对一些草稿基因组的注释相对较差，特别是啮齿动物疟疾寄生虫物种。为了改善伯氏并殖吸虫、查鲍迪并殖吸虫和约氏并殖吸虫三个种基因组草案的注释和基因鉴定现状，我们对这三个物种进行了全基因组比较。通过使用新设计的泛啮齿动物阵列进行比较基因组杂交以及深入的生物信息学分析，我们能够通过检测这些相关啮齿动物寄生虫物种之间的同源基因来提高草案啮齿动物寄生虫基因组的覆盖率。现在有1000多个约氏疟原虫的同源基因新发现与恶性疟原虫基因有关。除了扩展目前所有疟原虫物种的核心基因组外，这项分析还首次确定了相对较少的灵长类疟疾寄生虫特有的基因，而较大的基因组在啮齿类疟疾寄生虫中是唯一保守的。这些发现使我们能够更彻底地研究疟疾宿主专一性的重要基因。
In recent years a number of genome sequences for different plasmodium species have become available. This has allowed the identification of numerous conserved genes across the different species and has significantly enhanced our understanding of parasite biology. In contrast little is known about species specific differences between the different genomes partly due to the lower sequence coverage and therefore relatively poor annotation of some of the draft genomes particularly the rodent malarias parasite species. To improve the current annotation and gene identification status of the draft genomes of P. berghei, P. chabaudi and P. yoelii, we performed genome-wide comparisons between these three species. Through analyses via comparative genome hybridizations using a newly designed pan-rodent array as well as in depth bioinformatics analysis, we were able to improve on the coverage of the draft rodent parasite genomes by detecting orthologous genes between these related rodent parasite species. More than 1,000 orthologs for P. yoelii were now newly associated with a P. falciparum gene. In addition to extending the current core gene set for all plasmodium species this analysis also for the first time identifies a relatively small number of genes that are unique to the primate malaria parasites while a larger gene set is uniquely conserved amongst the rodent malaria parasites. These findings allow a more thorough investigation of the genes that are important for host specificity in malaria.
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影响因子：
9.8
作者：
Bozdech, Zbynek;Llinas, Manuel;Pulliam, Brian Lee;Wong, Edith D;Zhu, Jingchun;DeRisi, Joseph L
通讯作者：
DeRisi, Joseph L
DOI：
10.1093/bioinformatics/btn140
发表时间：
2008-07-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Vaughan A;Chiu SY;Ramasamy G;Li L;Gardner MJ;Tarun AS;Kappe SH;Peng X
通讯作者：
Peng X
影响因子：
64.8
作者：
Carlton, Jane M.;Adams, John H.;Silva, Joana C.;Bidwell, Shelby L.;Lorenzi, Hernan;Caler, Elisabet;Crabtree, Jonathan;Angiuoli, Samuel V.;Merino, Emilio F.;Amedeo, Paolo;Cheng, Qin;Coulson, Richard M. R.;Crabb, Brendan S.;del Portillo, Hernando A.;Essien, Kobby;Feldblyum, Tamara V.;Fernandez-Becerra, Carmen;Gilson, Paul R.;Gueye, Amy H.;Guo, Xiang;Kang'a, Simon;Kooij, Taco W. A.;Korsinczky, Michael;Meyer, Esmeralda V. -S.;Nene, Vish;Paulsen, Ian;White, Owen;Ralph, Stuart A.;Ren, Qinghu;Sargeant, Tobias J.;Salzberg, Steven L.;Stoeckert, Christian J.;Sullivan, Steven A.;Yamamoto, Marcio M.;Hoffman, Stephen L.;Wortman, Jennifer R.;Gardner, Malcolm J.;Galinski, Mary R.;Barnwell, John W.;Fraser-Liggett, Claire M.
通讯作者：
Fraser-Liggett, Claire M.
DOI：
10.1073/pnas.91.24.11373
发表时间：
1994-11-22
影响因子：
11.1
作者：
ESCALANTE, AA;AYALA, FJ
通讯作者：
AYALA, FJ
影响因子：
7
作者：
Ong, C;Ooi, CH;Tan, P
通讯作者：
Tan, P