Assembly of the Candida albicans genome into sixteen supercontigs aligned on the eight chromosomes.
Assembly of the Candida albicans genome into sixteen supercontigs aligned on the eight chromosomes.
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DOI：
10.1186/gb-2007-8-4-r52
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发表时间：
2007
期刊：
影响因子：
12.3
通讯作者：
Magee, P. T.
中科院分区：
文献类型：
--
作者：
van het Hoog, Marco;Rast, Timothy J.;Martchenko, Mikhail;Grindle, Suzanne;Dignard, Daniel;Hogues, Herve;Cuomo, Christine;Berriman, Matthew;Scherer, Stewart;Magee, B. B.;Whiteway, Malcolm;Chibana, Hiroji;Nantel, Andre;Magee, P. T.
对于白色念珠菌基因组的组装20，确定了八条染色体中每一条的序列，揭示了对基因家族创建和分散、亚端粒组织和染色体进化的新见解。2004年发表了最重要的人类真菌病原体白色念珠菌的10.9×基因组序列。组装19由412个超重叠群组成，其中266个是单倍体组，因为该真菌是二倍体并且包含广泛程度的杂合性，但缺乏完整的性周期。然而，特定染色体的序列没有确定。将来自组装体19的超重叠群（183个，占序列的98.4%）分配到通过脉冲场凝胶电泳纯化的单个染色体上，并与DNA微阵列杂交。发现9个组装19超重叠群含有来自两个不同染色体的标记。装配21包含八条染色体中的每一条的序列，并且使用同线性分析、都柏林假丝酵母基因组装配的初步版本、生物信息学、重叠fosmid克隆的序列标记位点（STS）图和光学图来确定。每个染色体上的重叠群的方向和顺序，重复区域太大而不能被序列运行覆盖，例如核糖体DNA簇和主要重复序列，以及端粒位置使用STS图确定。通过PCR和产物测序来闭合序列缺口。将整体组装与光学图谱进行比较;这识别了一些错误组装的重叠群，并给出了每条染色体的大小估计。装配21揭示了一个古老的染色体融合，一些小的内部重复，随后倒位，和亚端粒排列，包括一个新的基因家族，TLO基因。位置与基因家族相关性的相关性意味着一种新的分散方法。本文报道了C.白色念珠菌引起了一些有趣的生物学问题，如基因家族的产生和分散、亚端粒的组织和染色体的进化。
For Assembly 20 of the Candida albicans genome, the sequence of each of the eight chromosomes was determined, revealing new insights into gene family creation and dispersion, subtelomere organization, and chromosome evolution. The 10.9× genomic sequence of Candida albicans, the most important human fungal pathogen, was published in 2004. Assembly 19 consisted of 412 supercontigs, of which 266 were a haploid set, since this fungus is diploid and contains an extensive degree of heterozygosity but lacks a complete sexual cycle. However, sequences of specific chromosomes were not determined. Supercontigs from Assembly 19 (183, representing 98.4% of the sequence) were assigned to individual chromosomes purified by pulse-field gel electrophoresis and hybridized to DNA microarrays. Nine Assembly 19 supercontigs were found to contain markers from two different chromosomes. Assembly 21 contains the sequence of each of the eight chromosomes and was determined using a synteny analysis with preliminary versions of the Candida dubliniensis genome assembly, bioinformatics, a sequence tagged site (STS) map of overlapping fosmid clones, and an optical map. The orientation and order of the contigs on each chromosome, repeat regions too large to be covered by a sequence run, such as the ribosomal DNA cluster and the major repeat sequence, and telomere placement were determined using the STS map. Sequence gaps were closed by PCR and sequencing of the products. The overall assembly was compared to an optical map; this identified some misassembled contigs and gave a size estimate for each chromosome. Assembly 21 reveals an ancient chromosome fusion, a number of small internal duplications followed by inversions, and a subtelomeric arrangement, including a new gene family, the TLO genes. Correlations of position with relatedness of gene families imply a novel method of dispersion. The sequence of the individual chromosomes of C. albicans raises interesting biological questions about gene family creation and dispersion, subtelomere organization, and chromosome evolution.
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影响因子：
3.2
作者：
CHU, WS;MAGEE, BB;MAGEE, PT
通讯作者：
MAGEE, PT
DOI：
10.1099/13500872-141-2-469
发表时间：
1995-02-01
期刊：
MICROBIOLOGY-UK
影响因子：
--
作者：
CHINDAMPORN, A;NAKAGAWA, Y;TANAKA, K
通讯作者：
TANAKA, K
影响因子：
3.6
作者：
Ciudad, T;Andaluz, E;Larriba, G
通讯作者：
Larriba, G
影响因子：
7
作者：
Goodwin, TJD;Poulter, RTM
通讯作者：
Poulter, RTM
白色念珠菌基因组的人类策划注释。
影响因子：
4.5
作者：
Braun, BR;Hoog, MV;d'Enfert, C;Martchenko, M;Dungan, J;Kuo, A;Inglis, DO;Uhl, MA;Hogues, H;Berriman, M;Lorenz, M;Levitin, A;Oberholzer, U;Bachewich, C;Harcus, D;Marcil, A;Dignard, D;Iouk, T;Zito, R;Frangeul, L;Tekaia, F;Rutherford, K;Wang, E;Munro, CA;Bates, S;Gow, NA;Hoyer, LL;Köhler, G;Morschhäuser, J;Newport, G;Znaidi, S;Raymond, M;Turcotte, B;Sherlock, G;Costanzo, M;Ihmels, J;Berman, J;Sanglard, D;Agabian, N;Mitchell, AP;Johnson, AD;Whiteway, M;Nantel, A
通讯作者：
Nantel, A