南极黑冰鱼Chaenocephalus aceratus的一个染色体水平参考基因组
Seung Jae Lee1, Jinmu Kim1, Eun Kyung Choi1
1Department of Biotechnology, College of Life Sciences and Biotechnology, Korea University, Seoul, Korea.
Scientific data
|September 26, 2023
概括
研究人员使用Hi-C分析改进了南极黑冰鱼基因组组合. 这种增强的基因组序列可以更好地了解极地鱼进化中的防糖蛋白 (AFGPs).
科学领域:
- 基因组学就是基因组学.
- 海洋生物学 海洋生物学
- 动物学 动物学
背景情况:
- 黑冰鱼 (Chaenocephalus aceratus) 是一个南极的notothenioid鱼.
- 之前的基因组组装在脚手架上存在不准确性.
研究的目的:
- 为了改善黑冰鱼的染色体水平基因组组.
- 为了提高对南极鱼类抗糖蛋白 (AFGP) 基因的理解.
主要方法:
- 使用Hi-C分析来纠正之前的链接地图中的错误支架.
- 进行了基因组组装,并使用RNA证据,蛋白质和ab-initio预测进行了基因注释.
- 使用BUSCO分析来评估基因组的完整性.
主要成果:
- 实现了染色体级基因组组装,总大小为1065.72Mb,N50为33.46Mb.
- 88.88%的基因组在24个染色体上.
- 包括AFGP在内的38,024个基因的最终基因组被注释为92.7%的BUSCO完整性.
结论:
- 改进的基因组组合为研究南极鱼类提供了宝贵的资源.
- 这项工作有助于了解Notothenioidei亚序中的AFGP基因的演变和功能.
相关概念视频
Lampbrush Chromosomes
7.9K
In 1882, Flemming observed lampbrush chromosomes (LBC) in salamander eggs. Later in 1892, Rückert observed LBCs in shark egg cells and coined the term "lampbrush chromosomes" because they looked like brushes used to clean kerosene lamps.
LBCs are made up of two pairs of conjugating homologous chromatids. Each chromatid consists of alternatively positioned regions of condensed-inactive chromatin and loosely placed-active side loops, which can be contracted and extended. The loops...
LBCs are made up of two pairs of conjugating homologous chromatids. Each chromatid consists of alternatively positioned regions of condensed-inactive chromatin and loosely placed-active side loops, which can be contracted and extended. The loops...
7.9K
Heterochromatin
13.8K
The extent of chromatin compaction can be studied by staining chromatin using specific DNA binding dyes. Under the microscope, the dense-compacted regions that take up more dye are called heterochromatin. Heterochromatin is further classified into two forms – constitutive heterochromatin and facultative heterochromatin.
Constitutive heterochromatin: It is a highly compact region of chromatin that is mostly concentrated in the centromere and telomere. Unlike euchromatin, the amino acid at...
Constitutive heterochromatin: It is a highly compact region of chromatin that is mostly concentrated in the centromere and telomere. Unlike euchromatin, the amino acid at...
13.8K
Histone Variants at the Centromere
4.4K
Histone variants are the histone proteins with structural and sequence variations. These variants may be regarded as “mutant” forms that replace their canonical histone counterparts in the nucleosomes. Specific post-translational modifications on the histone variants enable further chromatin complexity and regulate tissue-specific gene expression. The most common histone variants are from histone H2A, H2B, and linker histone H1 families. However, several variants of histone H3...
4.4K


