盘基网柄菌6号染色体的高分辨率HAPPY图谱。
A high-resolution HAPPY map of Dictyostelium discoideum chromosome 6.
作者信息
Konfortov B A, Cohen H M, Bankier A T, Dear P H
机构信息
MRC Laboratory of Molecular Biology, Cambridge CB2 2QH, United Kingdom.
出版信息
Genome Res. 2000 Nov;10(11):1737-42. doi: 10.1101/gr.141700.
Abstract
We have made a high-resolution HAPPY map of chromosome 6 of Dictyostelium discoideum consisting of 300 sequence-tagged sites with an average spacing of 14 kb along the approximately 4-Mb chromosome. The majority of the marker sequences were derived from randomly chosen clones from four different chromosome 6-enriched plasmid libraries or from subclones of YACs previously mapped to chromosome 6. The map appears to span the entire chromosome, although marker density is greater in some regions than in others and is lowest within the telomeric region. Our map largely supports previous gene-based maps of this chromosome but reveals a number of errors in the physical map. In addition, we find that a high proportion of the plasmid sequences derived from gel-enriched chromosome 6 (and that form the basis of a chromosome-specific sequencing project) originates from other chromosomes.
摘要
我们构建了一个分辨率很高的盘基网柄菌6号染色体的HAPPY图谱，该图谱由300个序列标签位点组成，沿着约4兆碱基的染色体平均间距为14千碱基。大多数标记序列来自从四个不同的6号染色体富集质粒文库中随机选择的克隆，或来自先前定位到6号染色体的酵母人工染色体（YAC）的亚克隆。尽管某些区域的标记密度比其他区域大，且端粒区域内的标记密度最低，但该图谱似乎覆盖了整个染色体。我们的图谱在很大程度上支持了该染色体先前基于基因的图谱，但也揭示了物理图谱中的一些错误。此外，我们发现，从凝胶富集的6号染色体衍生而来（并构成一个染色体特异性测序项目基础）的质粒序列中，有很大一部分来自其他染色体。
相似文献
1
A high-resolution HAPPY map of Dictyostelium discoideum chromosome 6.盘基网柄菌6号染色体的高分辨率HAPPY图谱。
Genome Res. 2000 Nov;10(11):1737-42. doi: 10.1101/gr.141700.
2
A high resolution physical and RH map of pig chromosome 6q1.2 and comparative analysis with human chromosome 19q13.1.猪6号染色体6q1.2的高分辨率物理图谱和RH图谱以及与人类19号染色体19q13.1的比较分析。
BMC Genomics. 2003 May 13;4(1):20. doi: 10.1186/1471-2164-4-20.
3
Physical mapping of genes to specific chromosomes in Dictyostelium discoideum.将基因定位到盘基网柄菌特定染色体上的物理图谱构建
Genomics. 1992 May;13(1):49-61. doi: 10.1016/0888-7543(92)90201-3.
4
A comparative map of bovine chromosome 19 based on a combination of mapping on a bacterial artificial chromosome scaffold map, a whole genome radiation hybrid panel and the human draft sequence.基于细菌人工染色体支架图、全基因组辐射杂种细胞系和人类草图序列绘制的牛19号染色体比较图谱。
Cytogenet Genome Res. 2003;102(1-4):32-8. doi: 10.1159/000075721.
5
A HAPPY map of Cryptosporidium parvum.微小隐孢子虫的一张HAPPY图谱。
Genome Res. 1998 Dec;8(12):1299-307. doi: 10.1101/gr.8.12.1299.
6
A physical map of human chromosome 7: an integrated YAC contig map with average STS spacing of 79 kb.人类7号染色体的物理图谱：一个平均STS间距为79kb的整合酵母人工染色体（YAC）重叠群图谱。
Genome Res. 1997 Jul;7(7):673-92. doi: 10.1101/gr.7.7.673.
7
A high-resolution physical map of human chromosome 21p using yeast artificial chromosomes.利用酵母人工染色体构建的人类21号染色体短臂高分辨率物理图谱。
Genome Res. 1999 Nov;9(11):1059-73. doi: 10.1101/gr.9.11.1059.
8
A physical map of the 20q12-q13.1 region associated with type 2 diabetes.与2型糖尿病相关的20q12 - q13.1区域的物理图谱。
Genomics. 1999 Dec 1;62(2):208-15. doi: 10.1006/geno.1999.6007.
9
Generation of a 5.5-Mb BAC/PAC contig of pig chromosome 6q1.2 and its integration with existing RH, genetic and comparative maps.猪6号染色体6q1.2区域5.5兆碱基细菌人工染色体/噬菌体人工染色体重叠群的构建及其与现有辐射杂种、遗传和比较图谱的整合。
Cytogenet Genome Res. 2003;102(1-4):116-20. doi: 10.1159/000075735.
10
A physical map of large segments of pig chromosome 7q11-q14: comparative analysis with human chromosome 6p21.猪7号染色体7q11-q14大片段的物理图谱：与人类6号染色体6p21的比较分析
Mamm Genome. 2004 Dec;15(12):982-95. doi: 10.1007/s00335-004-3008-6.
引用本文的文献
1
Whole-Genome Restriction Mapping by "Subhaploid"-Based RAD Sequencing: An Efficient and Flexible Approach for Physical Mapping and Genome Scaffolding.基于“亚单倍体”的RAD测序进行全基因组限制性图谱绘制：一种用于物理图谱构建和基因组支架搭建的高效灵活方法。
Genetics. 2017 Jul;206(3):1237-1250. doi: 10.1534/genetics.117.200303. Epub 2017 May 3.
2
A deep coverage Dictyostelium discoideum genomic DNA library replicates stably in Escherichia coli.一个深度覆盖的盘基网柄菌基因组DNA文库在大肠杆菌中能稳定复制。
Genomics. 2015 Oct;106(4):249-55. doi: 10.1016/j.ygeno.2015.05.008. Epub 2015 May 29.
3
Insights into the genome structure and copy-number variation of Eimeria tenella.柔嫩艾美耳球虫基因组结构和拷贝数变异的研究进展。
BMC Genomics. 2012 Aug 13;13:389. doi: 10.1186/1471-2164-13-389.
4
Development and initial characterization of a HAPPY panel for mapping the X. tropicalis genome.用于绘制热带爪蟾基因组图谱的 HAPPY 面板的开发和初步特征描述。
Int J Biol Sci. 2011;7(7):1037-44. doi: 10.7150/ijbs.7.1037. Epub 2011 Aug 24.
5
Enhancing radiation hybrid mapping through whole genome amplification.通过全基因组扩增增强辐射杂种作图。
Hereditas. 2010 Apr;147(2):103-12. doi: 10.1111/j.1601-5223.2010.02166.x.
6
BAC-HAPPY mapping (BAP mapping): a new and efficient protocol for physical mapping.BAC-HAPPY 图谱构建（BAP 图谱构建）：一种新的高效物理图谱构建方法。
PLoS One. 2010 Feb 8;5(2):e9089. doi: 10.1371/journal.pone.0009089.
7
Old can be new again: HAPPY whole genome sequencing, mapping and assembly.旧物可翻新：全基因组测序、图谱绘制与组装进展顺利。
Int J Biol Sci. 2009;5(4):298-303. doi: 10.7150/ijbs.5.298. Epub 2009 Apr 15.
8
Sequencing and analysis of chromosome 1 of Eimeria tenella reveals a unique segmental organization.柔嫩艾美耳球虫1号染色体的测序与分析揭示了一种独特的节段组织。
Genome Res. 2007 Mar;17(3):311-9. doi: 10.1101/gr.5823007. Epub 2007 Feb 6.
9
The genome of the social amoeba Dictyostelium discoideum.社会性变形虫盘基网柄菌的基因组。
Nature. 2005 May 5;435(7038):43-57. doi: 10.1038/nature03481.
10
Integrated mapping, chromosomal sequencing and sequence analysis of Cryptosporidium parvum.微小隐孢子虫的整合图谱绘制、染色体测序及序列分析
Genome Res. 2003 Aug;13(8):1787-99. doi: 10.1101/gr.1555203. Epub 2003 Jul 17.
本文引用的文献
1
The Dictyostelium genome project: an invitation to species hopping.盘基网柄菌基因组计划：物种跨越之旅的邀请函。
Trends Genet. 1999 Aug;15(8):294-7. doi: 10.1016/s0168-9525(99)01770-9.
2
A HAPPY map of Cryptosporidium parvum.微小隐孢子虫的一张HAPPY图谱。
Genome Res. 1998 Dec;8(12):1299-307. doi: 10.1101/gr.8.12.1299.
3
A high-resolution metric HAPPY map of human chromosome 14.人类14号染色体的高分辨率度量HAPPY图谱。
Genomics. 1998 Mar 1;48(2):232-41. doi: 10.1006/geno.1997.5140.
4
Ordered yeast artificial chromosome clones representing the Dictyostelium discoideum genome.代表盘基网柄菌基因组的有序酵母人工染色体克隆。
Proc Natl Acad Sci U S A. 1996 May 28;93(11):5562-6. doi: 10.1073/pnas.93.11.5562.
5
Construction of genetic maps using distance geometry.使用距离几何构建遗传图谱。
Genomics. 1995 Nov 1;30(1):59-70. doi: 10.1006/geno.1995.0009.
6
Integrated maps of the chromosomes in Dictyostelium discoideum.盘基网柄菌染色体的整合图谱。
Genetics. 1995 Sep;141(1):147-57. doi: 10.1093/genetics/141.1.147.
7
Happy mapping: linkage mapping using a physical analogue of meiosis.快乐图谱：利用减数分裂物理模拟进行的连锁图谱构建
Nucleic Acids Res. 1993 Jan 11;21(1):13-20. doi: 10.1093/nar/21.1.13.
8
HAPPY mapping of a YAC reveals alternative haplotypes in the human immunoglobulin VH locus.酵母人工染色体（YAC）的HAPPY图谱揭示了人类免疫球蛋白VH基因座中的替代单倍型。
Nucleic Acids Res. 1993 Sep 25;21(19):4524-9. doi: 10.1093/nar/21.19.4524.
9
A genetic map of Dictyostelium discoideum based on mitotic recombination.基于有丝分裂重组构建的盘基网柄菌遗传图谱。
Genetics. 1982 Dec;102(4):691-710. doi: 10.1093/genetics/102.4.691.
10
Temperature-sensitive mutants of Dictyostelium discoideum.盘基网柄菌的温度敏感突变体。
J Bacteriol. 1969 Jul;99(1):65-9. doi: 10.1128/jb.99.1.65-69.1969.
Zotero 插件