Genome enablement of the notothenioidei: genome size estimates from 11 species and BAC libraries from 2 representative taxa.
Genome enablement of the notothenioidei: genome size estimates from 11 species and BAC libraries from 2 representative taxa.
复制标题
DOI：
10.1002/jez.b.21341
复制
发表时间：
2010-07-15
影响因子：
2.2
通讯作者：
Amemiya, Chris T.
中科院分区：
文献类型：
--
作者：
Detrich, H. William;Stuart, Andrew;Schoenborn, Michael;Parker, Sandra K.;Methe, Barbara A.;Amemiya, Chris T.
鲈形亚目Notothenoidei提供了一个令人信服的机会，研究适应性辐射的海洋物种群在寒冷的南大洋南极洲周围。为了使这些嗜冷鱼类的基因组水平的研究，我们估计了11个南极物种的基因组的大小，并产生了高质量的BAC库2，notothenia coriiceps和冰鱼Chaenocephalus aceratus。我们的研究结果表明，进化的遗传衍生notothenioid家庭，[例如，冰鱼（鱼科）]，伴随着基因组扩增。6种南极银鱼的C值在0.98 ~ 1.20 pg之间，而4种南极银鱼的C值在1.66-1.83 pg之间。BAC库VMRC-19（N. coriiceps）和VMRC-21（C. aceratus）包含各自基因组的12 X和10 X覆盖度，并且具有138和168 kb的平均插入片段大小。从每个文库中取样的BAC末端配对中，超过60%（每个基因组的约0.1%）含有重复序列，并且2个基因组的重复元件景观（N. coriiceps基因组和C.（Aceratus）是相似的。通过鉴定多个Hox基因重叠群验证了文库的代表性和覆盖深度：在N.在C中发现了coriiceps和至少五个Hox簇。aceratus。鉴于不寻常的解剖和生理适应的notothenioids，这些BAC库的可用性设置阶段的嗜冷生活模式的扩展分析。
The perciform suborder Notothenoidei provides a compelling opportunity to study the adaptive radiation of a marine species flock in the cold Southern Ocean surrounding Antarctica. To enable genome-level studies of these psychrophilic fishes, we estimated the sizes of the genomes of 11 Antarctic species and generated high-quality BAC libraries for 2, the notothen Notothenia coriiceps and the icefish Chaenocephalus aceratus. Our results indicate that evolution of phylogenetically derived notothenioid families, [e.g., the icefishes (Channichthyidae)], was accompanied by genome expansion. Species (n = 6) of the basal family Nototheniidae had C values that ranged between 0.98 and 1.20 pg, whereas those of the icefishes, the notothenioid crown group, were 1.66–1.83 pg (n = 4 species). The BAC libraries VMRC-19 (N. coriiceps) and VMRC-21 (C. aceratus) comprised 12X and 10X coverage of the respective genomes and had average insert sizes of 138 and 168 kb. Greater than 60% of paired BAC ends sampled from each library (~0.1% of each genome) contained repetitive sequences, and the repetitive element landscapes of the 2 genomes (13.4% of the N. coriiceps genome and 14.5% for C. aceratus) were similar. The representation and depth of coverage of the libraries were verified by identification of multiple Hox gene contigs: six discrete Hox clusters were found in N. coriiceps and at least five Hox clusters were found in C. aceratus. Given the unusual anatomical and physiological adaptations of the notothenioids, the availability of these BAC libraries sets the stage for expanded analysis of the psychrophilic mode of life.
登录
查看更多内容
DOI：
10.1508/cytologia.56.425
发表时间：
1991-01-01
期刊：
Cytologia (Tokyo)
影响因子：
--
作者：
CUI J;REN X;YU Q
通讯作者：
YU Q
影响因子：
3.5
作者：
Bucciarelli, G;Bernardi, G;Bernardi, G
通讯作者：
Bernardi, G
DOI：
10.1073/pnas.0802432105
发表时间：
2008-09-02
影响因子：
11.1
作者：
Chen, Zuozhou;Cheng, C. -H. Christina;Chen, Liangbiao
通讯作者：
Chen, Liangbiao
DOI：
10.1002/jez.a.20024
发表时间：
2004-03-01
期刊：
JOURNAL OF EXPERIMENTAL ZOOLOGY PART A-ECOLOGICAL GENETICS AND PHYSIOLOGY
影响因子：
--
作者：
Danke, J;Miyake, T;Amemiya, CT
通讯作者：
Amemiya, CT
影响因子：
64.8
作者：
DEVRIES, AL;EASTMAN, JT
通讯作者：
EASTMAN, JT