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Published on: January 30, 2017
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Transcriptional atlas analysis from multiple tissues reveals the expression specificity patterns in beef cattle
Tianliu Zhang1, Tianzhen Wang1, Qunhao Niu1
1Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, 100193, People's Republic of China.
BMC Biology
|March 30, 2022
Summary
We created a comprehensive beef cattle transcriptome atlas, identifying novel genes and understanding tissue-specific functions. This resource aids in improving genome annotation and cattle breeding for production and health traits.
Area of Science:
- Genomics
- Transcriptomics
- Animal Science
Background:
- Gene expression profiling is crucial for understanding tissue biological functions.
- A high-resolution transcriptome atlas in beef cattle was generated to facilitate this understanding.
Purpose of the Study:
- To create a comprehensive transcriptome atlas of beef cattle.
- To identify housekeeping genes (HKGs), tissue-specific genes (TSGs), and hub genes (HUBGs).
- To investigate differences between beef and dairy cattle transcriptomes for production and health traits.
Main Methods:
- Performed large-scale gene expression analysis on 135 bovine tissues.
- Utilized weighted gene co-expression network analysis to identify gene modules and hub genes.
- Conducted functional enrichment analysis and comparative analysis between beef and dairy cattle.
Main Results:
- Generated a transcriptome atlas from 135 adult beef cattle tissues, covering 51 organ systems.
- Detected 60,488 transcripts, with 32% being novel.
- Identified 2654 housekeeping genes (HKGs), 477 tissue-specific genes (TSGs), and 237 hub genes (HUBGs).
- Found HKGs maintain basic cellular functions, TSGs are involved in tissue differentiation, and HKGs show higher cross-species conservation.
- Identified tissue-specific differentially expressed genes (DEGs) between beef and dairy cattle related to production and health traits.
Conclusions:
- The beef cattle transcriptome atlas enhances genome assembly and annotation.
- Identified HKGs, TSGs, and HUBGs advance the understanding of cattle tissue biology and evolution.
- Discovered DEGs between beef and dairy cattle fill knowledge gaps in differential gene regulation for economically important traits.
Keywords:
Beef cattleCo-expression networkDifferentially expressed genesGene expressionHousekeeping genesTissue-specific genesMore Related Videos
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