Identification of candidate genes associated with peanut pod length by combined analysis of QTL-seq and RNA-seq
In this study, quantitative trait loci sequencing (QTL-seq) was performed using the F2 population constructed by a short-pod variety Tifrunner (Tif) and a long-pod line Lps, and a 0.77 Mb genomic region on chromosome 07 was identified as the candidate region for PL. Then, the candidate region was narrowed to a 265.93 kb region by traditional QTL approach. RNA-seq analysis showed that there were four differentially expressed genes (DEGs) in the candidate region, among which Arahy.PF2L6F (AhCDC48) and Arahy.P4LK2T (AhTAA1) were speculated to be PL-related candidate genes. These results were informative for the elucidation of...
Source: Genomics - March 23, 2024 Category: Genetics & Stem Cells Authors: Zhenghao Lv Guohu Lan Baiyi Bai Penghao Yu Chuantang Wang He Zhang Chao Zhong Xinhua Zhao Haiqiu Yu Source Type: research
Identification of candidate genes associated with peanut pod length by combined analysis of QTL-seq and RNA-seq
In this study, quantitative trait loci sequencing (QTL-seq) was performed using the F2 population constructed by a short-pod variety Tifrunner (Tif) and a long-pod line Lps, and a 0.77 Mb genomic region on chromosome 07 was identified as the candidate region for PL. Then, the candidate region was narrowed to a 265.93 kb region by traditional QTL approach. RNA-seq analysis showed that there were four differentially expressed genes (DEGs) in the candidate region, among which Arahy.PF2L6F (AhCDC48) and Arahy.P4LK2T (AhTAA1) were speculated to be PL-related candidate genes. These results were informative for the elucidation of...
Source: Genomics - March 23, 2024 Category: Genetics & Stem Cells Authors: Zhenghao Lv Guohu Lan Baiyi Bai Penghao Yu Chuantang Wang He Zhang Chao Zhong Xinhua Zhao Haiqiu Yu Source Type: research
Identification of candidate genes associated with peanut pod length by combined analysis of QTL-seq and RNA-seq
In this study, quantitative trait loci sequencing (QTL-seq) was performed using the F2 population constructed by a short-pod variety Tifrunner (Tif) and a long-pod line Lps, and a 0.77 Mb genomic region on chromosome 07 was identified as the candidate region for PL. Then, the candidate region was narrowed to a 265.93 kb region by traditional QTL approach. RNA-seq analysis showed that there were four differentially expressed genes (DEGs) in the candidate region, among which Arahy.PF2L6F (AhCDC48) and Arahy.P4LK2T (AhTAA1) were speculated to be PL-related candidate genes. These results were informative for the elucidation of...
Source: Genomics - March 23, 2024 Category: Genetics & Stem Cells Authors: Zhenghao Lv Guohu Lan Baiyi Bai Penghao Yu Chuantang Wang He Zhang Chao Zhong Xinhua Zhao Haiqiu Yu Source Type: research
GCN2-eIF2 α signaling pathway negatively regulates the growth of triploid crucian carp
In this study, genes associated with the GCN2-eIF2α pathway (pkr, pek, gcn2, eif2α) are founded lower expression levels in the triploid crucian carp (3nCC) muscle compared to that of the red crucian carp (RCC). In muscle effect stage embryos of the 3nCC, the mRNA levels of this pathway genes are generally lower than those of RCC, excluding hri and fgf21. Inhibiting gcn2 in 3nCC embryos downregulates downstream gene expression (eif2α, atf4, fgf21), accelerating embryonic development. In contrast, overexpressing of eif2α can alter the expression levels of downstream genes (atf4 and fgf21), and decelerates the embryonic d...
Source: Genomics - March 22, 2024 Category: Genetics & Stem Cells Authors: Xuejing Wang Fangyuan Peng Shuli Yuan Zhen Huang Lingwei Tang Song Chen Jinhui Liu Wen Fu Liangyue Peng Wenbin Liu Yamei Xiao Source Type: research
Effects of CRISPR/Cas9 targeting of the myo-inositol biosynthesis pathway on hyper-osmotic tolerance of tilapia cells
Genomics. 2024 Mar 20:110833. doi: 10.1016/j.ygeno.2024.110833. Online ahead of print.ABSTRACTMyo-inositol is an important compatible osmolyte in vertebrates. This osmolyte is produced by the myo-inositol biosynthesis (MIB) pathway composed of myo-inositol phosphate synthase and inositol monophosphatase . These enzymes are among the highest upregulated proteins in tissues and cell cultures from teleost fish exposed to hyperosmotic conditions indicating high importance of this pathway for tolerating this type of stress. CRISPR/Cas9 gene editing of tilapia cells produced knockout lines of MIB enzymes and control genes. Metab...
Source: Genomics - March 22, 2024 Category: Genetics & Stem Cells Authors: Jens Hamar Avner Cnaani Dietmar K ültz Source Type: research
A comprehensive comparison of molecular and phenotypic profiles between hepatitis B virus (HBV)-infected and non-HBV-infected hepatocellular carcinoma by multi-omics analysis
This study may provide insights into the profiles of HBV+ and HBV- HCCs, and guide rational therapeutic interventions for HCC patients.PMID:38513875 | DOI:10.1016/j.ygeno.2024.110831 (Source: Genomics)
Source: Genomics - March 21, 2024 Category: Genetics & Stem Cells Authors: Zijie Wu Zehua Dong Jiangti Luo Weiwei Hu Yue Tong Xiangdong Gao Wenbing Yao Hong Tian Xiaosheng Wang Source Type: research
A comprehensive comparison of molecular and phenotypic profiles between hepatitis B virus (HBV)-infected and non-HBV-infected hepatocellular carcinoma by multi-omics analysis
This study may provide insights into the profiles of HBV+ and HBV- HCCs, and guide rational therapeutic interventions for HCC patients.PMID:38513875 | DOI:10.1016/j.ygeno.2024.110831 (Source: Genomics)
Source: Genomics - March 21, 2024 Category: Genetics & Stem Cells Authors: Zijie Wu Zehua Dong Jiangti Luo Weiwei Hu Yue Tong Xiangdong Gao Wenbing Yao Hong Tian Xiaosheng Wang Source Type: research
Genome-wide identification of the TIFY gene family in tobacco and expression analysis in response to Ralstonia solanacearum infection
In this study, genome-wide identification of TIFY members in tobacco and their expression pattern analysis in response to Ralstonia solanacearum infection were performed. A total of 33 TIFY genes were identified, including the TIFY, PPD, ZIM&ZML and JAZ subfamilies. Promoter analysis results indicated that a quantity of light-response, drought-response, SA-response and JA-response cis-elements exist in promoter regions. The TIFY gene family exhibited expansion and possessed gene redundancy resulting from tobacco ploidy change. In addition, most NtTIFYs equivalently expressed in roots, stems and leaves, while NtTIFY1, N...
Source: Genomics - March 16, 2024 Category: Genetics & Stem Cells Authors: Huifen Zhang Zhengwen Liu Ruimei Geng Min Ren Lirui Cheng Dan Liu Caihong Jiang Liuying Wen Zhiliang Xiao Aiguo Yang Source Type: research
Mutational profile evaluates metastatic capacity of Chinese colorectal cancer patients, revealed by whole-exome sequencing
In conclusion, this study identified the unique characteristics of gene mutations in Chinese patients with colorectal cancer, and is a valuable reference for personalized treatment in Chinese CRC patients.PMID:38492821 | DOI:10.1016/j.ygeno.2024.110809 (Source: Genomics)
Source: Genomics - March 16, 2024 Category: Genetics & Stem Cells Authors: Yian Yang Jiawei Chen Honghua Peng Zhigang Xiao Wei Xu Mingchuan Zheng Zheng Li Peiguo Cao Source Type: research
Genome-wide identification of the TIFY gene family in tobacco and expression analysis in response to Ralstonia solanacearum infection
In this study, genome-wide identification of TIFY members in tobacco and their expression pattern analysis in response to Ralstonia solanacearum infection were performed. A total of 33 TIFY genes were identified, including the TIFY, PPD, ZIM&ZML and JAZ subfamilies. Promoter analysis results indicated that a quantity of light-response, drought-response, SA-response and JA-response cis-elements exist in promoter regions. The TIFY gene family exhibited expansion and possessed gene redundancy resulting from tobacco ploidy change. In addition, most NtTIFYs equivalently expressed in roots, stems and leaves, while NtTIFY1, N...
Source: Genomics - March 16, 2024 Category: Genetics & Stem Cells Authors: Huifen Zhang Zhengwen Liu Ruimei Geng Min Ren Lirui Cheng Dan Liu Caihong Jiang Liuying Wen Zhiliang Xiao Aiguo Yang Source Type: research
Mutational profile evaluates metastatic capacity of Chinese colorectal cancer patients, revealed by whole-exome sequencing
In conclusion, this study identified the unique characteristics of gene mutations in Chinese patients with colorectal cancer, and is a valuable reference for personalized treatment in Chinese CRC patients.PMID:38492821 | DOI:10.1016/j.ygeno.2024.110809 (Source: Genomics)
Source: Genomics - March 16, 2024 Category: Genetics & Stem Cells Authors: Yian Yang Jiawei Chen Honghua Peng Zhigang Xiao Wei Xu Mingchuan Zheng Zheng Li Peiguo Cao Source Type: research
Genome-wide identification of the TIFY gene family in tobacco and expression analysis in response to Ralstonia solanacearum infection
In this study, genome-wide identification of TIFY members in tobacco and their expression pattern analysis in response to Ralstonia solanacearum infection were performed. A total of 33 TIFY genes were identified, including the TIFY, PPD, ZIM&ZML and JAZ subfamilies. Promoter analysis results indicated that a quantity of light-response, drought-response, SA-response and JA-response cis-elements exist in promoter regions. The TIFY gene family exhibited expansion and possessed gene redundancy resulting from tobacco ploidy change. In addition, most NtTIFYs equivalently expressed in roots, stems and leaves, while NtTIFY1, N...
Source: Genomics - March 16, 2024 Category: Genetics & Stem Cells Authors: Huifen Zhang Zhengwen Liu Ruimei Geng Min Ren Lirui Cheng Dan Liu Caihong Jiang Liuying Wen Zhiliang Xiao Aiguo Yang Source Type: research
Mutational profile evaluates metastatic capacity of Chinese colorectal cancer patients, revealed by whole-exome sequencing
In conclusion, this study identified the unique characteristics of gene mutations in Chinese patients with colorectal cancer, and is a valuable reference for personalized treatment in Chinese CRC patients.PMID:38492821 | DOI:10.1016/j.ygeno.2024.110809 (Source: Genomics)
Source: Genomics - March 16, 2024 Category: Genetics & Stem Cells Authors: Yian Yang Jiawei Chen Honghua Peng Zhigang Xiao Wei Xu Mingchuan Zheng Zheng Li Peiguo Cao Source Type: research
Genome-wide identification of the TIFY gene family in tobacco and expression analysis in response to Ralstonia solanacearum infection
In this study, genome-wide identification of TIFY members in tobacco and their expression pattern analysis in response to Ralstonia solanacearum infection were performed. A total of 33 TIFY genes were identified, including the TIFY, PPD, ZIM&ZML and JAZ subfamilies. Promoter analysis results indicated that a quantity of light-response, drought-response, SA-response and JA-response cis-elements exist in promoter regions. The TIFY gene family exhibited expansion and possessed gene redundancy resulting from tobacco ploidy change. In addition, most NtTIFYs equivalently expressed in roots, stems and leaves, while NtTIFY1, N...
Source: Genomics - March 16, 2024 Category: Genetics & Stem Cells Authors: Huifen Zhang Zhengwen Liu Ruimei Geng Min Ren Lirui Cheng Dan Liu Caihong Jiang Liuying Wen Zhiliang Xiao Aiguo Yang Source Type: research
Mutational profile evaluates metastatic capacity of Chinese colorectal cancer patients, revealed by whole-exome sequencing
In conclusion, this study identified the unique characteristics of gene mutations in Chinese patients with colorectal cancer, and is a valuable reference for personalized treatment in Chinese CRC patients.PMID:38492821 | DOI:10.1016/j.ygeno.2024.110809 (Source: Genomics)
Source: Genomics - March 16, 2024 Category: Genetics & Stem Cells Authors: Yian Yang Jiawei Chen Honghua Peng Zhigang Xiao Wei Xu Mingchuan Zheng Zheng Li Peiguo Cao Source Type: research
