Identification and Regulatory Network Analysis of Genes Related to Reproductive Performance in the Hypothalamus and Pituitary of Angus Cattle
In this study, we explored the gene expression patterns of the pituitary gland and hypothalamus of Angus cows at different growth and developmental stages by deep sequencing and we identified genes that affect bovine reproductive performance to provide new ideas for improving bovine fertility in pro...
| Main Authors: | , , , , , , , , , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2022-05-01
|
| Series: | Genes |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2073-4425/13/6/965 |
| _version_ | 1797487167004475392 |
|---|---|
| author | Yuwen Huang Chenfeng Yuan Yun Zhao Chunjin Li Maosheng Cao Haobang Li Zijiao Zhao Ao Sun Wangdui Basang Yanbin Zhu Lu Chen Fang He Cheng Huan Boqi Zhang Tariq Iqbal Yamen Wei Wenjing Fan Kangle Yi Xu Zhou |
| author_facet | Yuwen Huang Chenfeng Yuan Yun Zhao Chunjin Li Maosheng Cao Haobang Li Zijiao Zhao Ao Sun Wangdui Basang Yanbin Zhu Lu Chen Fang He Cheng Huan Boqi Zhang Tariq Iqbal Yamen Wei Wenjing Fan Kangle Yi Xu Zhou |
| author_sort | Yuwen Huang |
| collection | DOAJ |
| description | In this study, we explored the gene expression patterns of the pituitary gland and hypothalamus of Angus cows at different growth and developmental stages by deep sequencing and we identified genes that affect bovine reproductive performance to provide new ideas for improving bovine fertility in production practice. We selected three 6-month-old (weaning period), three 18-month-old (first mating period), and three 30-month-old (early postpartum) Angus cattle. The physiological status of the cows in each group was the same, and their body conformations were similar. After quality control of the sequencing, the transcriptome analyses of 18 samples yielded 129.18 GB of clean data. We detected 13,280 and 13,318 expressed genes in the pituitary gland and hypothalamus, respectively, and screened 35 and 50 differentially expressed genes (DEGs) for each, respectively. The differentially expressed genes in both tissues were mainly engaged in metabolism, lipid synthesis, and immune-related pathways in the 18-month-old cows as compared with the 6-month-old cows. The 30-month-old cows presented more regulated reproductive behavior, and pituitary CAMK4 was the main factor regulating the reproductive behavior during this period via the pathways for calcium signaling, longevity, oxytocin, and aldosterone synthesis and secretion. A variant calling analysis also was performed. The SNP inversions and conversions in each sample were counted according to the different base substitution methods. In all samples, most base substitutions were represented by substitutions between bases A and G, and the probability of base conversion exceeded 70%, far exceeding the transversion. Heterozygous SNP sites exceeded 37.68%. |
| first_indexed | 2024-03-09T23:43:43Z |
| format | Article |
| id | doaj.art-4c44cee48a144785b237958b6c4fd6ef |
| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-09T23:43:43Z |
| publishDate | 2022-05-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Genes |
| spelling | doaj.art-4c44cee48a144785b237958b6c4fd6ef2023-11-23T16:47:01ZengMDPI AGGenes2073-44252022-05-0113696510.3390/genes13060965Identification and Regulatory Network Analysis of Genes Related to Reproductive Performance in the Hypothalamus and Pituitary of Angus CattleYuwen Huang0Chenfeng Yuan1Yun Zhao2Chunjin Li3Maosheng Cao4Haobang Li5Zijiao Zhao6Ao Sun7Wangdui Basang8Yanbin Zhu9Lu Chen10Fang He11Cheng Huan12Boqi Zhang13Tariq Iqbal14Yamen Wei15Wenjing Fan16Kangle Yi17Xu Zhou18Jilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaJilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaJilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaJilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaJilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaHunan Institute of Animal and Veterinary Science, 8 Changliang Road, Changsha 410131, ChinaJilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaHunan Institute of Animal and Veterinary Science, 8 Changliang Road, Changsha 410131, ChinaLaboratory of Hulless Barley and Yak Germplasm Resources and Genetic Improvement, Lhasa 850002, ChinaLaboratory of Hulless Barley and Yak Germplasm Resources and Genetic Improvement, Lhasa 850002, ChinaJilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaHunan Institute of Animal and Veterinary Science, 8 Changliang Road, Changsha 410131, ChinaHunan Institute of Animal and Veterinary Science, 8 Changliang Road, Changsha 410131, ChinaJilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaJilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaJilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaJilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaHunan Institute of Animal and Veterinary Science, 8 Changliang Road, Changsha 410131, ChinaJilin Provincial Key Laboratory of Animal Embryo Engineering, College of Animal Science and Veterinary Medicine, Jilin University, 5333 Xi’an Avenue, Changchun 130062, ChinaIn this study, we explored the gene expression patterns of the pituitary gland and hypothalamus of Angus cows at different growth and developmental stages by deep sequencing and we identified genes that affect bovine reproductive performance to provide new ideas for improving bovine fertility in production practice. We selected three 6-month-old (weaning period), three 18-month-old (first mating period), and three 30-month-old (early postpartum) Angus cattle. The physiological status of the cows in each group was the same, and their body conformations were similar. After quality control of the sequencing, the transcriptome analyses of 18 samples yielded 129.18 GB of clean data. We detected 13,280 and 13,318 expressed genes in the pituitary gland and hypothalamus, respectively, and screened 35 and 50 differentially expressed genes (DEGs) for each, respectively. The differentially expressed genes in both tissues were mainly engaged in metabolism, lipid synthesis, and immune-related pathways in the 18-month-old cows as compared with the 6-month-old cows. The 30-month-old cows presented more regulated reproductive behavior, and pituitary CAMK4 was the main factor regulating the reproductive behavior during this period via the pathways for calcium signaling, longevity, oxytocin, and aldosterone synthesis and secretion. A variant calling analysis also was performed. The SNP inversions and conversions in each sample were counted according to the different base substitution methods. In all samples, most base substitutions were represented by substitutions between bases A and G, and the probability of base conversion exceeded 70%, far exceeding the transversion. Heterozygous SNP sites exceeded 37.68%.https://www.mdpi.com/2073-4425/13/6/965angus cattlehigh-throughput sequencingpituitaryhypothalamusreproductive performance |
| spellingShingle | Yuwen Huang Chenfeng Yuan Yun Zhao Chunjin Li Maosheng Cao Haobang Li Zijiao Zhao Ao Sun Wangdui Basang Yanbin Zhu Lu Chen Fang He Cheng Huan Boqi Zhang Tariq Iqbal Yamen Wei Wenjing Fan Kangle Yi Xu Zhou Identification and Regulatory Network Analysis of Genes Related to Reproductive Performance in the Hypothalamus and Pituitary of Angus Cattle Genes angus cattle high-throughput sequencing pituitary hypothalamus reproductive performance |
| title | Identification and Regulatory Network Analysis of Genes Related to Reproductive Performance in the Hypothalamus and Pituitary of Angus Cattle |
| title_full | Identification and Regulatory Network Analysis of Genes Related to Reproductive Performance in the Hypothalamus and Pituitary of Angus Cattle |
| title_fullStr | Identification and Regulatory Network Analysis of Genes Related to Reproductive Performance in the Hypothalamus and Pituitary of Angus Cattle |
| title_full_unstemmed | Identification and Regulatory Network Analysis of Genes Related to Reproductive Performance in the Hypothalamus and Pituitary of Angus Cattle |
| title_short | Identification and Regulatory Network Analysis of Genes Related to Reproductive Performance in the Hypothalamus and Pituitary of Angus Cattle |
| title_sort | identification and regulatory network analysis of genes related to reproductive performance in the hypothalamus and pituitary of angus cattle |
| topic | angus cattle high-throughput sequencing pituitary hypothalamus reproductive performance |
| url | https://www.mdpi.com/2073-4425/13/6/965 |
| work_keys_str_mv | AT yuwenhuang identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT chenfengyuan identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT yunzhao identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT chunjinli identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT maoshengcao identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT haobangli identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT zijiaozhao identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT aosun identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT wangduibasang identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT yanbinzhu identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT luchen identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT fanghe identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT chenghuan identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT boqizhang identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT tariqiqbal identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT yamenwei identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT wenjingfan identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT kangleyi identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle AT xuzhou identificationandregulatorynetworkanalysisofgenesrelatedtoreproductiveperformanceinthehypothalamusandpituitaryofanguscattle |