TMT-labeled quantitative malonylome analysis on the longissimus dorsi muscle of Laiwu pigs reveals the role of ACOT7 in fat deposition
In this study, the TMT-labeled quantitative malonylome of the longissimus dorsi muscle in Laiwu pigs at the fastest IMF deposition stage (240 d vs 120 d) was compared to analyze the molecular mechanism of IMF variation in pigs. In Laiwu pigs aged 240 days/120 days, we identified 291 malonylated lysine sites across 188 proteins in the longissimus dorsi muscle. Among these, 38 sites across 31 proteins exhibited differential malonylation. Annotation analysis and enrichment analysis were performed for differentially malonylated proteins (DMPs). These DMPs were mainly clustered into 12 GO functional categories accounting for 5 ...
Source: Journal of Proteomics - February 23, 2024 Category: Biochemistry Authors: Wenlei Wang Cai Ma Qin Zhang Yunliang Jiang Source Type: research
TMT-labeled quantitative malonylome analysis on the longissimus dorsi muscle of Laiwu pigs reveals the role of ACOT7 in fat deposition
In this study, the TMT-labeled quantitative malonylome of the longissimus dorsi muscle in Laiwu pigs at the fastest IMF deposition stage (240 d vs 120 d) was compared to analyze the molecular mechanism of IMF variation in pigs. In Laiwu pigs aged 240 days/120 days, we identified 291 malonylated lysine sites across 188 proteins in the longissimus dorsi muscle. Among these, 38 sites across 31 proteins exhibited differential malonylation. Annotation analysis and enrichment analysis were performed for differentially malonylated proteins (DMPs). These DMPs were mainly clustered into 12 GO functional categories accounting for 5 ...
Source: Journal of Proteomics - February 23, 2024 Category: Biochemistry Authors: Wenlei Wang Cai Ma Qin Zhang Yunliang Jiang Source Type: research
Stable isotope labeling-based two-step derivatization strategy for analysis of Phosphopeptides
J Proteomics. 2024 Feb 19:105128. doi: 10.1016/j.jprot.2024.105128. Online ahead of print.ABSTRACTInvestigating site-specific protein phosphorylation remains a challenging task. The present study introduces a two-step chemical derivatization method for accurate identification of phosphopeptides. Methylamine neutralizes carboxyl groups, thus reducing the adsorption of non-phosphorylated peptides during enrichment, while dimethylamine offers a cost-effective reagent for stable isotope labeling of phosphorylation sites. The derivatization improves the mass spectra obtained through liquid chromatography-tandem mass spectrometr...
Source: Journal of Proteomics - February 21, 2024 Category: Biochemistry Authors: Lunfei Zou Yao Wang Xingdan Wang Xiaoqiu Yang Qiwei Zhang Qi Zheng Source Type: research
Stable isotope labeling-based two-step derivatization strategy for analysis of Phosphopeptides
J Proteomics. 2024 Feb 19:105128. doi: 10.1016/j.jprot.2024.105128. Online ahead of print.ABSTRACTInvestigating site-specific protein phosphorylation remains a challenging task. The present study introduces a two-step chemical derivatization method for accurate identification of phosphopeptides. Methylamine neutralizes carboxyl groups, thus reducing the adsorption of non-phosphorylated peptides during enrichment, while dimethylamine offers a cost-effective reagent for stable isotope labeling of phosphorylation sites. The derivatization improves the mass spectra obtained through liquid chromatography-tandem mass spectrometr...
Source: Journal of Proteomics - February 21, 2024 Category: Biochemistry Authors: Lunfei Zou Yao Wang Xingdan Wang Xiaoqiu Yang Qiwei Zhang Qi Zheng Source Type: research
Quantitative proteomics analysis identified new interacting proteins of JAL30 in Arabidopsis
In this study, we found JAL30 as a nucleocytoplasmic protein, but no obvious phenotype was observed in jal30-1 single mutant. Through immunoprecipitation (IP) enrichment combined with liquid chromatography-tandem mass spectrometry (LC-MS/MS), dozens of new JAL30 interacting proteins were found in addition to several reported ones. Gene Ontology (GO) analysis revealed that these interacting proteins were highly related to the wounding and bacterial stimuli, suggesting their potential involvement in the jasmonate (JA) response. Importantly, the expression of JAL30 was induced by MeJA treatment, further highlighting its relev...
Source: Journal of Proteomics - February 17, 2024 Category: Biochemistry Authors: Jianghu Bian Rongqing Chen Shiting Gu Wenfei Wang Xuelian Yang Source Type: research
Quantitative proteomics analysis identified new interacting proteins of JAL30 in Arabidopsis
In this study, we found JAL30 as a nucleocytoplasmic protein, but no obvious phenotype was observed in jal30-1 single mutant. Through immunoprecipitation (IP) enrichment combined with liquid chromatography-tandem mass spectrometry (LC-MS/MS), dozens of new JAL30 interacting proteins were found in addition to several reported ones. Gene Ontology (GO) analysis revealed that these interacting proteins were highly related to the wounding and bacterial stimuli, suggesting their potential involvement in the jasmonate (JA) response. Importantly, the expression of JAL30 was induced by MeJA treatment, further highlighting its relev...
Source: Journal of Proteomics - February 17, 2024 Category: Biochemistry Authors: Jianghu Bian Rongqing Chen Shiting Gu Wenfei Wang Xuelian Yang Source Type: research
Quantitative proteomics analysis identified new interacting proteins of JAL30 in Arabidopsis
In this study, we found JAL30 as a nucleocytoplasmic protein, but no obvious phenotype was observed in jal30-1 single mutant. Through immunoprecipitation (IP) enrichment combined with liquid chromatography-tandem mass spectrometry (LC-MS/MS), dozens of new JAL30 interacting proteins were found in addition to several reported ones. Gene Ontology (GO) analysis revealed that these interacting proteins were highly related to the wounding and bacterial stimuli, suggesting their potential involvement in the jasmonate (JA) response. Importantly, the expression of JAL30 was induced by MeJA treatment, further highlighting its relev...
Source: Journal of Proteomics - February 17, 2024 Category: Biochemistry Authors: Jianghu Bian Rongqing Chen Shiting Gu Wenfei Wang Xuelian Yang Source Type: research
Quantitative proteomics analysis identified new interacting proteins of JAL30 in Arabidopsis
In this study, we found JAL30 as a nucleocytoplasmic protein, but no obvious phenotype was observed in jal30-1 single mutant. Through immunoprecipitation (IP) enrichment combined with liquid chromatography-tandem mass spectrometry (LC-MS/MS), dozens of new JAL30 interacting proteins were found in addition to several reported ones. Gene Ontology (GO) analysis revealed that these interacting proteins were highly related to the wounding and bacterial stimuli, suggesting their potential involvement in the jasmonate (JA) response. Importantly, the expression of JAL30 was induced by MeJA treatment, further highlighting its relev...
Source: Journal of Proteomics - February 17, 2024 Category: Biochemistry Authors: Jianghu Bian Rongqing Chen Shiting Gu Wenfei Wang Xuelian Yang Source Type: research
Similar construction of spicules and shell plates: Implications for the origin of chiton biomineralization
In this study, we try to understand the types and diversity of matrix proteins in the biomineralization of chiton shell plates and spicules. Through a comparative analysis, we seek insights into the core biomineralization toolkit of ancestral mollusks. To achieve this, we conducted LC-MS/MS and RT-qPCR analyses to identify the types and relative expression levels of matrix proteins in both shell plates and spicules. The analysis revealed 96 matrix proteins in the spicules. A comparison of biomineralization-related matrix proteins in shell plates and spicules from the same species revealed shared proteins including many unk...
Source: Journal of Proteomics - February 16, 2024 Category: Biochemistry Authors: Haipeng Liu Chuang Liu Wenjing Zhang Yang Yuan Zhenglu Wang Jingliang Huang Source Type: research
Untargeted metabolomics of buffalo urine reveals hydracyrlic acid, 3-bromo-1-propanol and benzyl serine as potential estrus biomarkers
In this study, hydracrylic acid, 3-bromo-1-propanol and benzyl serine were found to be significantly upregulated in the estrous phase of buffalo (p-value ≤0.05, FC ≥ 2). Further confirmation of the metabolic biomarkers was done using Receiver operating characteristics (ROC) analysis which also supported these three metabolites as probable biomarkers as they had AUC values of 0.7 or greater. Hence, this study will be of prime importance for the people working in the area of animal metabolomics.PMID:38364903 | DOI:10.1016/j.jprot.2024.105124 (Source: Journal of Proteomics)
Source: Journal of Proteomics - February 16, 2024 Category: Biochemistry Authors: Pooja Doshi Chetana Bhalaiya Vishal Suthar Vikas Patidar Chaitanya Joshi Amrutlal Patel Ishan Raval Source Type: research
Revealing the mechanism of fiber promoting sow embryo implantation by altering the abundance of uterine fluid proteins: A proteomic perspective
This study used 4D-Label free technology to identify and analyze the effect of the fiber composition in the diet on the protein in the early pregnancy uterine fluid (UF) of sows. The results indicate that ratio of insoluble fibers to soluble fibers (ISF/SF) 4.89 can increase the concentration of progesterone (PROG) and reduce tumor necrosis factorα (TNF-α) concentration in sow UF. In addition, through 4D-Label free, we identified a total of 4248 proteins, 38 proteins abundance upregulated and 283 proteins abundance downregulated in UF. Through enrichment analysis of these differential abundance proteins (DAPs), it was fo...
Source: Journal of Proteomics - February 16, 2024 Category: Biochemistry Authors: Junlei Chang Xujing Pan Junjie Gao Yong Zhuo Xuemei Jiang Lianqiang Che Yan Lin Zhengfeng Fang Bin Feng Jian Li Lun Hua Xilun Zhao Ruinan Zhang De Wu Shengyu Xu Source Type: research
Global proteome of the saprophytic strain Leptospira biflexa and comparative analysis with pathogenic strain Leptospira interrogans uncover new pathogenesis mechanisms
J Proteomics. 2024 Feb 14:105125. doi: 10.1016/j.jprot.2024.105125. Online ahead of print.ABSTRACTLeptospira is a genus of bacteria that includes free-living saprophytic species found in water or soil, and pathogenic species, which are the etiologic agents of leptospirosis. Besides all the efforts, there are only a few proteins described as virulence factors in the pathogenic strain L. interrogans. This work aims to perform L. biflexa serovar Patoc1 strain Paris global proteome and to compare with the proteome database of pathogenic L. interrogans serovar Copenhageni strain Fiocruz L1-130. We identified a total of 2327 exp...
Source: Journal of Proteomics - February 16, 2024 Category: Biochemistry Authors: Edson G Nascimento Filho M ônica L Vieira Meriellen Dias Maria A Mendes Fabio B Sanchez Jo ão C Setubal Marcos B Heinemann Gisele O Souza Daniel C Pimenta Ana L T O Nascimento Source Type: research
Similar construction of spicules and shell plates: Implications for the origin of chiton biomineralization
In this study, we try to understand the types and diversity of matrix proteins in the biomineralization of chiton shell plates and spicules. Through a comparative analysis, we seek insights into the core biomineralization toolkit of ancestral mollusks. To achieve this, we conducted LC-MS/MS and RT-qPCR analyses to identify the types and relative expression levels of matrix proteins in both shell plates and spicules. The analysis revealed 96 matrix proteins in the spicules. A comparison of biomineralization-related matrix proteins in shell plates and spicules from the same species revealed shared proteins including many unk...
Source: Journal of Proteomics - February 16, 2024 Category: Biochemistry Authors: Haipeng Liu Chuang Liu Wenjing Zhang Yang Yuan Zhenglu Wang Jingliang Huang Source Type: research
Untargeted metabolomics of buffalo urine reveals hydracyrlic acid, 3-bromo-1-propanol and benzyl serine as potential estrus biomarkers
In this study, hydracrylic acid, 3-bromo-1-propanol and benzyl serine were found to be significantly upregulated in the estrous phase of buffalo (p-value ≤0.05, FC ≥ 2). Further confirmation of the metabolic biomarkers was done using Receiver operating characteristics (ROC) analysis which also supported these three metabolites as probable biomarkers as they had AUC values of 0.7 or greater. Hence, this study will be of prime importance for the people working in the area of animal metabolomics.PMID:38364903 | DOI:10.1016/j.jprot.2024.105124 (Source: Journal of Proteomics)
Source: Journal of Proteomics - February 16, 2024 Category: Biochemistry Authors: Pooja Doshi Chetana Bhalaiya Vishal Suthar Vikas Patidar Chaitanya Joshi Amrutlal Patel Ishan Raval Source Type: research
Revealing the mechanism of fiber promoting sow embryo implantation by altering the abundance of uterine fluid proteins: A proteomic perspective
This study used 4D-Label free technology to identify and analyze the effect of the fiber composition in the diet on the protein in the early pregnancy uterine fluid (UF) of sows. The results indicate that ratio of insoluble fibers to soluble fibers (ISF/SF) 4.89 can increase the concentration of progesterone (PROG) and reduce tumor necrosis factorα (TNF-α) concentration in sow UF. In addition, through 4D-Label free, we identified a total of 4248 proteins, 38 proteins abundance upregulated and 283 proteins abundance downregulated in UF. Through enrichment analysis of these differential abundance proteins (DAPs), it was fo...
Source: Journal of Proteomics - February 16, 2024 Category: Biochemistry Authors: Junlei Chang Xujing Pan Junjie Gao Yong Zhuo Xuemei Jiang Lianqiang Che Yan Lin Zhengfeng Fang Bin Feng Jian Li Lun Hua Xilun Zhao Ruinan Zhang De Wu Shengyu Xu Source Type: research
