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Method for assembling and annotating genome of Hoba Tibetan sheep based on three-generation PacBio and Hi-C technologies

A Tibetan sheep and genome technology, applied in the field of biological information, can solve problems such as the elusive molecular mechanism, restricting the research on the molecular mechanism of the alpine and hypoxia adaptation of the Khoba Tibetan sheep, etc., and achieve the effect of high integrity and many repeating sequences.

Pending Publication Date: 2021-07-23
LANZHOU INST OF ANIMAL SCI & VETERINARY PHARMA OF CAAS
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Problems solved by technology

But due to the lack of reference genomes of these endemic species, the molecular mechanism of their alpine and hypoxic adaptation remains elusive
At present, there is no reference genome of Hoba Tibetan sheep, which restricts the research on the molecular mechanism of Hoba Tibetan sheep adaptation to high cold and low oxygen

Method used

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  • Method for assembling and annotating genome of Hoba Tibetan sheep based on three-generation PacBio and Hi-C technologies
  • Method for assembling and annotating genome of Hoba Tibetan sheep based on three-generation PacBio and Hi-C technologies
  • Method for assembling and annotating genome of Hoba Tibetan sheep based on three-generation PacBio and Hi-C technologies

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Embodiment 1

[0037] EXAMPLES 1. Methods 1 Materials and Methods for Method 1 Material and Method for Impressing Hobbio and Hi-C Technology Assembly and Comment

[0038] 1.1 sample collection

[0039] In the Tibet Autonomous Region, Shikati City, Zhongba County, Hobbow City, Yilong Village, Hobbow, Yilong Village, Hobbam, Choose, Choice of Health Adult Range (altitude> 5000m), in the morning, fly belly, 5ml, 5ml, was added to EDTA-K2 anticoagulant In the blood collection tube, it is stored in the -20 ° C refrigerator. Then slaughtered and immediately divided the heart, liver lung, lung, spleen, rumen and muscle tissue, quickly rinse the blood of the tissue surface with pre-cold saline, cut into 0.5cm 2 Small pieces and stored in liquid nitrogen.

[0040] 1.2 library construction and sequencing

[0041] Using a blood genomic extract kit (Tiangen Biochemical Technology Beijing Co.,, Beijing) and CTAB (hexadalkyltrimel bromine amine) method to extract DNA in Hobba Tibetan Tibetan Tibetan Blood and...

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Abstract

The invention belongs to the technical field of bioinformatics, and particularly relates to a method for assembling and annotating a genome of Hoba Tibetan sheep based on three-generation PacBio and Hi-C technologies. The method comprises the following steps: (1) collecting blood and tissue samples of Hoba Tibetan sheep; (2) constructing a genome library and a transcriptome library; (3) evaluating genome size and heterozygosity rate; (4) assembling genome, conducting error correction by utilizing a transcription sequencing result; (5) conducting Hi-C assisted assembly and evaluation; and (6) conducting genome annotation and evaluation. According to the method, the high-quality genome of the Hoba Tibetan sheep is assembled at a chromosome level, thereby providing valuable genome resources for studying conservation and innovative utilization of genetic resources of Tibetan sheep populations, and laying a solid foundation for further researches on an environment adaptation mechanism of specific livestock species in the Qinghai-Tibet Plateau. The method of the present invention lays foundation for researches on an alpine and hypoxia adaptive molecular mechanism of the Hoba Tibetan sheep, and provides reference data for researches on human hypoxia-related diseases.

Description

Technical field [0001] The present invention belongs to the field of biological information, and in particular, the present invention relates to a method of assembling and commenting the hooded sheep genome based on three generations of PACBIO and HI-C technology. Background technique [0002] Hoba Tibetan Sheep is also known as Hobbar Tibetan Sheep, is a place where the original valuable genetic resources formed under the natural ecological conditions of alphan grassland. Among them, the heart production area is located in Yulian Village, Hobbowi, Zhongba County, Tibet Autonomous Region, is located in the Yarli Zhaobong Gengjama area, sea wave than 5,000M, Yarlun Zangji, Yarlun Zangbu. Alpine and hypoxia are the main ecological restriction factors, and the plateau indigenous animals have formed a unique low oxygen adaptive strategy during long-term adaptive evolution. Tibetan sheep is an important part of the indigenous rumizers and grassland ecosystems of the Qinghai-Tibet Plat...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): C12Q1/6869G16B20/00C12N15/12
CPCC07K14/47C12Q1/6869G16B20/00C12Q2535/122C12Q2537/165C12Q2525/191
Inventor 卢曾奎刘建斌袁超
Owner LANZHOU INST OF ANIMAL SCI & VETERINARY PHARMA OF CAAS
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