Genome sequencing data of cyanine de novo

In order to analyze how and when vines entered the Qinghai Tibet Plateau, and to explore the relationship between the spread and domestication of vines on the Qinghai Tibet Plateau and the plateau settlement and ancient Silk exchanges of early human activities, the research team conducted genome sequencing and de sequencing of the whole genome of self bred F1 varieties of Brassica rapa in Nangqian County of Qinghai Province in June 2018 The size of the assembled genome was 409.69 MB and contig N50 was 1.21 MB. This result can provide a genetic basis for studying the relationship between plant dispersal and human activities. At the same time, this study will help to reveal the effects of artificial domestication and human selection on the genetic differentiation of the plant and the adaptive mechanism of the plant to the plateau ecological environment.

0 2021-09-16

Hi-C sequencing data of cyanine genome

Based on the high-quality genomic sequence analysis, the high-quality genome sequences can be obtained. Therefore, through this technology, the project team divides the sequences in the genome sequence sketch into groups that are consistent with the chromosome number of the species, and determines the order and orientation of all sequences in each group. After that, we can combine the reference vines genome, transcriptome assembly sequence (EST sequence), related species and genetic map data The accuracy of grouping and the sequence and direction between sequences were evaluated.

0 2021-09-16

Genome sequencing data of equine (2020)

In order to study the population evolution history and local adaptive genetic mechanism of main domesticated equine animals in Qinghai Tibet Plateau and its surrounding areas, and to establish the corresponding germplasm genetic resource bank. We have sequenced 236 horse samples collected in Qinghai Province, Tibet Autonomous Region and Xinjiang Autonomous Region by the end of 2018, including Tibetan horse, Tibetan donkey, plain domestic donkey and Jiama plain local breed. Seventy five samples (including 73 donkey samples and two horse samples) were sequenced for mitochondrial genome and D-loop sequencing. A number of genomic data were generated by sequencing, which provided data for tracing the domestication, migration, expansion and other historical events of horse domesticated animals in this area, and further exploring the adaptation mechanism of equine animals to the harsh environment such as hypoxia, high temperature and dryness.

0 2021-01-04

Plant genome re sequencing data (2020)

In order to study the relationship between the spread of vines and human activities, we re sequenced the varieties from Qinghai Tibet Plateau and its surrounding areas, as well as Pakistan, India, Nepal, Germany, Japan and other places. At the same time, the gene families were clustered, and the unique and common genes and gene families were counted. In addition, the expansion and contraction analysis of gene families and the phylogeny were also carried out Tree construction, genome-wide replication event analysis. The purpose of this study was to analyze the molecular basis of the adaptation of traditional Cranberry varieties to the plateau under the dual pressure of human activities and regional climate environment. Therefore, this study is helpful to reveal the adaptive mechanism of C. racemosa adapting to the plateau ecological environment and the influence of artificial domestication and human selection on its genetic differentiation in the process of evolution.

0 2020-12-29

Sequencing of intestinal microorganisms in domestic animals (2020)

In order to describe the diseases of the main domesticated animals in the Qinghai Tibet Plateau and its surrounding areas, investigate the epidemic situation of the main domestic animals in the Qinghai Tibet Plateau, collect the genetic samples of the resistant and susceptible individuals and the intestinal microbial samples of the main epidemic diseases of the main domestic animals. The data set includes 48 samples of brown cattle in Yili area of Xinjiang, 39 samples of Haidong Mongolian sheep in Qinghai, 32 samples of Qinghai horse, 20 samples of Shangri La yellow cattle in Yunnan and 20 samples of goat. All the samples were fresh feces, and the results of 16S sequencing were obtained after DNA extraction. All the data are original data without any analysis. The purpose of testing these samples is to compare the differences of intestinal microbial species and quantity among different domestic animals in the pan third polar region.

0 2020-12-29

Phenotypic data of main domestic animals in Gansu Qinghai region (2020)

From April 2020 to August 2020, sub project 3 collected 51 ear tissue samples of Qinghai fine wool sheep distributed in Haiyan County, Haixi Mongolian and Tibetan Autonomous Prefecture, Qinghai Province, 50 blood samples of Oula sheep in Tongde County, Hainan Tibetan Autonomous Prefecture, 50 blood samples of yak in Tongde County, Hainan Tibetan Autonomous Prefecture, 60 blood samples of Haidong donkey in Datong Hui and Tu Autonomous County, Xining City, and tissue samples A total of 211 copies. At the same time, the information of body length, body height, weight, age and gender, as well as the data of economic traits such as litter size, wool fineness and wool length were recorded. The individual photos were taken, and the information of feeding mode and epidemic situation were obtained through questionnaire survey.

0 2020-12-29

Transcriptome sequencing data of major domestic animals (2020)

In order to describe the distribution pattern of genetic diversity of the main domesticated animals in the Qinghai Tibet Plateau and its surrounding areas (Pan third polar region), and clarify its genetic background. In 2020, we selected 31 RNA tissue samples from kidney, spleen and jejunum of local commercial chicken and native chicken in Kenya. After extracting total RNA, we established a library and performed transcriptome sequencing. Sequencing produced a batch of 180g transcriptome sequencing raw data. In order to explore the domestication, migration, expansion and other historical events of domestic chicken in Pan third pole area, and further explore the adaptation mechanism of domesticated animals to dry and other harsh environment. This data set contains the excel table of basic sample information such as species, breed, sex and phenotype of 31 domestic chicken individuals, and the original data and MD5 value of three tissue transcriptome sequencing of 31 domestic chicken individuals.

0 2020-12-29

Phenotypic data of major domestic animals (2020)

In order to describe the distribution pattern of genetic diversity of main domesticated animals in Qinghai Tibet Plateau and its surrounding areas, clarify their genetic background and establish corresponding genetic resource bank. In December 2019, a total of 1208 blood or tissue samples were collected from 254 goats of Chongqing Dazu black goat, Lubei white goat, Hainan black goat, Xuzhou SuBai goat and Yimeng black goat in Chongqing, Shandong, Jiangsu and Hainan, including 9 fresh tissue RNA samples such as heart, liver, spleen, lung and kidney. This data set contains the sample species, species, detailed sampling place, sample type, collection time, collector, storage method and other basic sample information, which is stored in the form of Excel. The data set also contains the appearance photos of individual species, which are stored in JPG format.

0 2020-12-29

Plant genome re sequencing data (2020)

In order to study the relationship between the spread of vines and human activities, we re sequenced the varieties from Qinghai Tibet Plateau and its surrounding areas, as well as Pakistan, India, Nepal, Germany, Japan and other places. At the same time, the gene families were clustered, and the unique and common genes and gene families were counted. In addition, the expansion and contraction analysis of gene families and the phylogeny were also carried out Tree construction, genome-wide replication event analysis. The purpose of this study was to analyze the molecular basis of the adaptation of traditional Cranberry varieties to the plateau under the dual pressure of human activities and regional climate environment. Therefore, this study is helpful to reveal the adaptive mechanism of C. racemosa adapting to the plateau ecological environment and the influence of artificial domestication and human selection on its genetic differentiation in the process of evolution.

0 2020-12-21

Plant Hi-C sequencing data (2020)

Based on the high-quality genomic sequence analysis, the high-quality genome sequences can be obtained. Therefore, through this technology, the project team divides the sequences in the genome sequence sketch into groups that are consistent with the chromosome number of the species, and determines the order and orientation of all sequences in each group. After that, we can combine the reference vines genome, transcriptome assembly sequence (EST sequence), related species and genetic map data The accuracy of grouping and the sequence and direction between sequences were evaluated.

0 2020-12-21