Genomic organization of duplicated major histocompatibility complex class I regions in Atlantic salmon (Salmo salar).
Genomic organization of duplicated major histocompatibility complex class I regions in Atlantic salmon (Salmo salar).
复制标题
DOI：
10.1186/1471-2164-8-251
复制
发表时间：
2007-07-25
期刊：
影响因子：
4.4
通讯作者：
Koop BF
中科院分区：
文献类型：
--
作者：
Lukacs MF;Harstad H;Grimholt U;Beetz-Sargent M;Cooper GA;Reid L;Bakke HG;Phillips RB;Miller KM;Davidson WS;Koop BF
我们以前已经在大西洋鲑鱼中确定了主要组织相容性复合体(MHC)I类与对细菌和病毒病原体的抗性之间的关联。为了评估是否只有MHC或密切相关的基因对观察到的抗药性有贡献，我们冒险对大西洋鲑鱼复制的MHC I类区域进行了测序。对大西洋鲑鱼两个重复的MHC I类区域中超过500kb的9个BAC进行了测序，并对其基因组织进行了表征。这两个区域都含有蛋白酶体组分PSMB8、PSMB9、PSMB9和PSMB10，以及KIFC1、ZBTB22、DAXX、TAPBP、BRD2、COL11A2、RXRB和SLC39A7基因。IA区含有最近报道的MHC I类SASA-ULA基因座，位于主要SASA-UBA基因座上游约50kb处。复制的IB类区域含有一个MHC I类基因座，与虹鳟鱼的UCA基因座相似，但尽管它是转录的，但它是假基因。在这两个重复区域未检测到其他MHC-I类基因。跨越UBA基因座的两个等位BAC在125kb以上的同源性为99.2%，而IA区与IB区在136kb以上的同源性为82.5%。与含有3个甲壳素合成酶基因的IA区相比，大西洋鲑鱼IB区的插入片段为220kb。我们已经确定了大西洋鲑鱼中两个重复的MHC I类区域中超过500kb的基因组织。虽然大西洋鲑鱼和虹鲑鱼关系密切，但其IB区的基因组织经历了广泛的基因重排。大西洋鲑鱼在IB区只有一个I类UCA假基因，而鲑鱼包含4个MHC UCA、UDA、UEA和UFA I类基因座。鲑鱼和鲑鱼类IB区在基因含量和最可能的功能上的巨大差异清楚地表明，鲑鱼的测序不一定提供与鲑鱼相关的信息，反之亦然。
We have previously identified associations between major histocompatibility complex (MHC) class I and resistance towards bacterial and viral pathogens in Atlantic salmon. To evaluate if only MHC or also closely linked genes contributed to the observed resistance we ventured into sequencing of the duplicated MHC class I regions of Atlantic salmon. Nine BACs covering more than 500 kb of the two duplicated MHC class I regions of Atlantic salmon were sequenced and the gene organizations characterized. Both regions contained the proteasome components PSMB8, PSMB9, PSMB9-like and PSMB10 in addition to the transporter for antigen processing TAP2, as well as genes for KIFC1, ZBTB22, DAXX, TAPBP, BRD2, COL11A2, RXRB and SLC39A7. The IA region contained the recently reported MHC class I Sasa-ULA locus residing approximately 50 kb upstream of the major Sasa-UBA locus. The duplicated class IB region contained an MHC class I locus resembling the rainbow trout UCA locus, but although transcribed it was a pseudogene. No other MHC class I-like genes were detected in the two duplicated regions. Two allelic BACs spanning the UBA locus had 99.2% identity over 125 kb, while the IA region showed 82.5% identity over 136 kb to the IB region. The Atlantic salmon IB region had an insert of 220 kb in comparison to the IA region containing three chitin synthase genes. We have characterized the gene organization of more than 500 kb of the two duplicated MHC class I regions in Atlantic salmon. Although Atlantic salmon and rainbow trout are closely related, the gene organization of their IB region has undergone extensive gene rearrangements. The Atlantic salmon has only one class I UCA pseudogene in the IB region while trout contains the four MHC UCA, UDA, UEA and UFA class I loci. The large differences in gene content and most likely function of the salmon and trout class IB region clearly argues that sequencing of salmon will not necessarily provide information relevant for trout and vice versa.
登录
查看更多内容
影响因子：
32.4
作者：
Gobin, SJP;Peijnenburg, A;vandenElsen, PJ
通讯作者：
vandenElsen, PJ
影响因子：
3.2
作者：
BingulacPopovic, J;Figueroa, F;Klein, J
通讯作者：
Klein, J
影响因子：
7
作者：
Han, CS;Sutherland, RD;Doggett, NA
通讯作者：
Doggett, NA
影响因子：
14.9
作者：
Frazer, KA;Pachter, L;Dubchak, I
通讯作者：
Dubchak, I
影响因子：
3.2
作者：
Grimholt, U;Drablos, F;Stet, RJM
通讯作者：
Stet, RJM