The TIGR Maize Database.
The TIGR Maize Database.
复制标题
TIGR玉米数据库。
DOI：
10.1093/nar/gkj072
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发表时间：
2006-01-01
影响因子：
14.9
通讯作者：
Rabinowicz, Pablo D.
中科院分区：
文献类型：
--
作者：
Chan, Agnes P.;Pertea, Geo;Cheung, Foo;Lee, Dan;Zheng, Li;Whitelaw, Cathy;Pontaroli, Ana C.;SanMiguel, Phillip;Yuan, Yinan;Bennetzen, Jeffrey;Barbazuk, William Brad;Quackenbush, John;Rabinowicz, Pablo D.
玉米是禾本科的主要作物，也是植物遗传学的极佳模式。由于其基因组的大小和重复性，我们先前研究了两种加速玉米基因发现和基因组分析的方法：甲基化筛选和高C0t选择。这些技术通过最小化重复序列的甲基化状态或拷贝数来构建基因丰富的基因组文库，从而使基因序列相对于随机基因组文库的丰富程度提高了7倍。从玉米中产生了大约900个 000基因富集区，并将其聚为玉米组装序列(AZM)。在这里，我们报告当前的AZM版本，它由∼298Mb组成，代表243个 807序列组装和单态。为了提供公开可用的玉米基因组序列的存储库，我们创建了TIGR玉米数据库()。在这个资源中，我们对AZM进行了组装和注释，并使用现有的测序标记将AZM锚定在玉米染色体上。我们已经构建了一个玉米重复数据库，并生成了287个玉米细菌人工染色体(BAC)克隆序列的草稿序列组合，我们将其与另外172个公开可用的BAC克隆一起进行了注释。所有序列、装配和注释均可在项目网站上通过Web界面和ftp下载获得。
Maize is a staple crop of the grass family and also an excellent model for plant genetics. Owing to the large size and repetitiveness of its genome, we previously investigated two approaches to accelerate gene discovery and genome analysis in maize: methylation filtration and high C0t selection. These techniques allow the construction of gene-enriched genomic libraries by minimizing repeat sequences due to either their methylation status or their copy number, yielding a 7-fold enrichment in genic sequences relative to a random genomic library. Approximately 900 000 gene-enriched reads from maize were generated and clustered into Assembled Zea mays (AZM) sequences. Here we report the current AZM release, which consists of ∼298 Mb representing 243 807 sequence assemblies and singletons. In order to provide a repository of publicly available maize genomic sequences, we have created the TIGR Maize Database (). In this resource, we have assembled and annotated the AZMs and used available sequenced markers to anchor AZMs to maize chromosomes. We have constructed a maize repeat database and generated draft sequence assemblies of 287 maize bacterial artificial chromosome (BAC) clone sequences, which we annotated along with 172 additional publicly available BAC clones. All sequences, assemblies and annotations are available at the project website via web interfaces and FTP downloads.
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影响因子：
5.4
作者：
Haas BJ;Wortman JR;Ronning CM;Hannick LI;Smith RK Jr;Maiti R;Chan AP;Yu C;Farzad M;Wu D;White O;Town CD
通讯作者：
Town CD
影响因子：
4.2
作者：
Sanmiguel, P;Bennetzen, JL
通讯作者：
Bennetzen, JL
影响因子：
4.4
作者：
Huang, XQ;Adams, MD;Kerlavage, AR
通讯作者：
Kerlavage, AR
影响因子：
5.8
作者：
Pertea, G;Huang, XQ;Quackenbush, J
通讯作者：
Quackenbush, J
影响因子：
1.6
作者：
HAKE, S;WALBOT, V
通讯作者：
WALBOT, V