Article
Plant Sciences
Lu Zhu, Jing Wen, Qiuyue Ma, Kunyuan Yan, Yiming Du, Zhu Chen, Xiaoyu Lu, Jie Ren, Yuelan Wang, Shushun Li, Qianzhong Li
Summary: In this study, the leaf color changes of two A. palmatum genotypes were analyzed. These findings provide novel insights into variations in leaf coloration and suggest pathways for targeted genetic improvements in A. palmatum.
Article
Plant Sciences
Ping-Min Wu, Yan Leng, Shi-Weng Li
Summary: This study investigates the effects of ABA on gene expression in mung bean seedlings. The results show that ABA significantly regulates the expression levels and profiles of genes in the leaf, stem, and root tissues. ABA triggers cellular signal transduction pathways and activates metabolic processes related to stress response. It provides valuable insights into the differential regulation of gene expression by exogenous ABA in leguminous plants.
PLANT GROWTH REGULATION
(2022)
Article
Genetics & Heredity
Hongtao Nie, Mengge Zheng, Zhengxing Wang, Qiaoyue Xu, Zhihui Yin, Yanming Zhang, Xiwu Yan
Summary: Transcriptome sequencing and gene expression analysis revealed differential expression patterns of growth-related genes and pathways, such as Ras signaling pathway, hedgehog signaling pathway, AMPK signaling pathway, in fast-growing and slow-growing R. philippinarum, providing important insights into the molecular basis of growth variability in marine bivalves.
FUNCTIONAL & INTEGRATIVE GENOMICS
(2021)
Article
Plant Sciences
Chaoqun Xu, Xiang Liu, Guoan Shen, Xuelan Fan, Yue Zhang, Chao Sun, Fengmei Suo, Baolin Guo
Summary: This study reveals the dynamics and regulatory network of prenylated flavonol glycosides (PFGs) biosynthesis in the leaves of the Chinese medicinal herb Epimedium pubescens. Metabolite profiling and transcriptome analysis identified key candidate structural genes and transcription factors (TFs) involved in PFG accumulation. The results provide valuable insights into the molecular regulatory mechanism of PFG biosynthesis, enrich the gene resources, and guide further research on PFG accumulation in Epimedium.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Multidisciplinary Sciences
Yun Ren, Wen Bo Li, Zhe Xin Li, Wen Lin Zhang, Deng Wei Jue, Hai Tao Xing, Hong Lei Li, Qiang Li
Summary: This study conducted a comprehensive analysis of hormone content and transcriptome during ginger rhizome enlargement. The levels of hormones such as zeatin, gibberellic acid, indole acetic acid, and jasmonic acid increased significantly with rhizome enlargement and were positively correlated with rhizome diameter. Transcriptomic analysis revealed a large number of differentially expressed genes, particularly those involved in hormone biosynthesis, signaling, cell division and expansion, and transcription factors. These findings provide valuable gene resources and information for molecular breeding in ginger.
Article
Multidisciplinary Sciences
C. Wittenbecher, R. Cuadrat, L. Johnston, F. Eichelmann, S. Jaeger, O. Kuxhaus, M. Prada, F. M. Del Greco, A. A. Hicks, P. Hoffman, J. Krumsiek, F. B. Hu, M. B. Schulze
Summary: This study investigates the association between specific ceramides and dihydroceramides and the risk of developing type 2 diabetes and cardiovascular disease. The results indicate that certain ceramides and dihydroceramides are positively or negatively associated with disease risk. Moreover, the study suggests that the effects of high red meat consumption and coffee intake on disease risk are partly mediated by (dihydro)ceramides.
NATURE COMMUNICATIONS
(2022)
Article
Plant Sciences
Faguang Hu, Xiaofei Bi, Hongming Liu, Xingfei Fu, Yanan Li, Yang Yang, Xiaofang Zhang, Ruirui Wu, Guiping Li, Yulan Lv, Jiaxiong Huang, Xinping Luo, Rui Shi
Summary: Transcriptome profiling was used to identify key color-regulating genes and pathways in matured fruits of four C. arabica varieties. The study revealed important insights into fruit color formation and variations, which can aid in developing coffee varieties with specific color and quality traits.
Article
Forestry
Yuru Tian, Qianqian Li, Shupei Rao, Aike Wang, Hechen Zhang, Liangsheng Wang, Yue Li, Jinhuan Chen
Summary: In this study, liquid chromatography-mass spectrometry was used to analyze a wide range of metabolites in the leaves of different poplar varieties, revealing numerous flavonoid metabolites. Gene expression analysis showed differential expression of phenylpropanoid biosynthesis pathway-related genes in red leaf poplar varieties, as well as potential anthocyanin biosynthesis regulators.
Article
Biochemistry & Molecular Biology
Zhijun Wang, Yanjun Li, Qianhao Zhu, Liwen Tian, Feng Liu, Xinyu Zhang, Jie Sun
Summary: In this study, the molecular mechanisms underlying the varietal difference in Mepiquat chloride (MC) sensitivity in cotton plants were investigated using transcriptome analysis. The results revealed that signal transduction of phytohormones, biosynthesis of gibberellins (GAs) and brassinosteroids (BRs), and profiles of transcription factors (TFs) were differentially affected by MC in the two cotton varieties. These findings indicate that although the same or similar biological pathways are influenced by MC treatment in cotton plants, the extent of effect varies, leading to different phenotypic outcomes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Microbiology
Yingyu Chen, Wenjun Zhai, Kailun Zhang, Han Liu, Tingting Zhu, Li Su, Luiz Bermudez, Huanchun Chen, Aizhen Guo
Summary: This study examined the differential expression of sRNAs in Mycobacterium tuberculosis and Mycobacterium bovis Bacillus Calmette-Guerin (BCG) infection models, finding that many were associated with lipid metabolism. One particular sRNA, ncBCG427, was significantly downregulated when BCG entered macrophages and was linked to increased biofilm formation. The results suggest that virulence reduction in mycobacteria may be dependent on the regulation of lipid metabolism.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Plant Sciences
Yujiao Zhao, Zhengyang Yang, Zhongren Zhang, Minzhen Yin, Shanshan Chu, Zhenzhen Tong, Yuejian Qin, Liangping Zha, Qingying Fang, Yuan Yuan, Luqi Huang, Huasheng Peng
Summary: This study describes the assembly of the F. multiflora genome and reveals its pharmacological activities in anti-oxidation and anti-aging. It also identifies the genetic differences that occurred after a whole-genome duplication event with Tartary buckwheat. Through genomics, transcriptomics, and metabolomics data, two genes responsible for the synthesis of resveratrol in F. multiflora were identified. These findings not only contribute to understanding the biosynthetic pathway of stilbenes but also provide tools for increasing their production through molecular breeding or metabolic engineering.
HORTICULTURE RESEARCH
(2023)
Article
Cell Biology
Martijn Wehrens, Anne E. de Leeuw, Maya Wright-Clark, Joep E. C. Eding, Cornelis J. Boogerd, Bas Molenaar, Petra H. van der Kraak, Diederik W. D. Kuster, Jolanda van der Velden, Michelle Michels, Aryan Vink, Eva van Rooij
Summary: Functional links between genes and cell size relevant for HCM were identified using scRNA-seq on patients' samples. The study provides valuable insights into molecular events involved in HCM and may contribute to the development of enhanced therapies.
Article
Plant Sciences
Madiha Zaynab, Jiaofeng Peng, Yasir Sharif, Mohammed Albaqami, Rashid Al-Yahyai, Mahpara Fatima, Muhammad Azhar Nadeem, Khalid Ali Khan, Saqer S. Alotaibi, Ibrahim A. Alaraidh, Hassan O. Shaikhaldein, Shuangfei Li
Summary: This study conducted a comprehensive analysis of DDP proteins in the potato genome, identifying 10 DDP genes and studying their characteristics in terms of phylogenetics, gene duplication, expression profiles, and promoter regions involved in stress response. The research revealed that StDDP genes were distributed across different clades, and exhibited various expression patterns in response to heat stress and salt stress. Real-time qPCR results indicated that StDDPs played significant roles in potato growth and development.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Genetics & Heredity
Xiaodong Zhang, Caixia Li, Zhanchao Hao, Yongjiang Liu
Summary: Angelica dahurica roots have a long history of use in traditional Chinese medicine due to their high coumarin content. In this study, transcriptome analysis and weighted gene co-expression network analysis (WGCNA) were used to identify key genes and gene modules involved in coumarin and terpenoid backbone biosynthesis. KEGG enrichment analysis was also conducted to explore crucial pathways in coumarin biosynthesis. The findings provide valuable insights into the biosynthesis of coumarin in A. dahurica, which can facilitate future research and potential applications in traditional Chinese medicine and synthetic biology strategies.
Article
Biochemistry & Molecular Biology
Jian Cui, Na Zhang, Ying Liu, Lei Zhang, Chengjiang Gao, Suxia Liu
Summary: TIPE2 regulates apoptosis of HBV-infected hepatocytes by upregulating expression of pro-apoptotic genes, leading to increased cell death in virus-infected cells.
MOLECULAR IMMUNOLOGY
(2021)
Article
Agriculture, Dairy & Animal Science
Pamela A. Alexandre, Antonio Reverter, Sigrid A. Lehnert, Laercio R. Porto-Neto, Sonja Dominik
JOURNAL OF ANIMAL SCIENCE
(2020)
Article
Genetics & Heredity
Pamela A. Alexandre, Nicholas J. Hudson, Sigrid A. Lehnert, Marina R. S. Fortes, Marina Naval-Sanchez, Loan T. Nguyen, Laercio R. Porto-Neto, Antonio Reverter
Article
Agriculture, Dairy & Animal Science
Brad C. Hine, Amy M. Bell, Dominic D. O. Niemeyer, Christian J. Duff, Nick M. Butcher, Sonja Dominik, Laercio R. Porto-Neto, Yutao Li, Antonio Reverter, Aaron B. Ingham, Ian G. Colditz
Summary: The study suggests that selecting for improved immune competence in beef production systems can reduce mortality rates during feedlot finishing, leading to improved animal health and welfare, as well as decreased health-associated costs for operators.
JOURNAL OF ANIMAL SCIENCE
(2021)
Article
Agriculture, Dairy & Animal Science
Hector Marina, Aroa Suarez-Vega, Rocio Pelayo, Beatriz Gutierrez-Gil, Antonio Reverter, Cristina Esteban-Blanco, Juan Jose Arranz
Summary: Parentage misassignments can impact genetic gain in traditional breeding programs. Genetic markers like microsatellites and SNPs are used for parentage verification in sheep. Transitioning from microsatellites to SNP markers can be cost-effective for parentage testing. This study aims to develop a low-density SNP chip for accurate parentage verification in Assaf sheep by imputing microsatellite markers from SNPs with high accuracy.
Article
Agriculture, Dairy & Animal Science
D. T. Thomas, Y. G. Beletse, S. Dominik, S. A. Lehnert
Summary: The research discussed the grain feeding phase in ruminant red meat production systems around the world and the role of red meat in the food system. The NPC method was applied to evaluate the Australian grass-fed and grain-finished beef supply chains, which make positive contributions to human protein requirements, with the grain-finished system having markedly lower NPC values than the grass-fed system.
Article
Agriculture, Dairy & Animal Science
Muhammad S. Tahir, Laercio R. Porto-Neto, Toni Reverter-Gomez, Babatunde S. Olasege, Mirza R. Sajid, Kimberley B. Wockner, Andre W. L. Tan, Marina R. S. Fortes
Summary: Biologically informed SNP set did not show significantly better performance in predicting fertility traits in Tropical Composites compared to other SNP sets, but it captured all observed genetic variance when modeled together with biologically uninformed SNP set.
JOURNAL OF ANIMAL SCIENCE
(2022)
Article
Agriculture, Dairy & Animal Science
H. Marina, R. Pelayo, B. Gutierrez-Gil, A. Suarez-Vega, C. Esteban-Blanco, A. Reverter, J. J. Arranz
Summary: The present study investigates different strategies for improving the accuracy of estimated breeding values and the application of a low-density SNP chip. Through analyzing milk samples from dairy ewes and using various multi-trait methods, the study finds that genomic selection can enhance the accuracy of estimated breeding values, and the low-density SNP chip is a cost-effective and accurate tool.
JOURNAL OF DAIRY SCIENCE
(2022)
Article
Multidisciplinary Sciences
Laercio R. Porto-Neto, Pamela A. Alexandre, Nicholas J. Hudson, John Bertram, Sean M. McWilliam, Andre W. L. Tan, Marina R. S. Fortes, Michael R. McGowan, Ben J. Hayes, Antonio Reverter
Summary: Worldwide, the identification and selection of fertile bulls plays a crucial role in beef production. In this study, fertility-related phenotypes and high-density DNA genotypes were collected for thousands of bulls from six tropical breeds, revealing both genetic correlations and the importance of breed representation for accurate genomic estimated breeding values. Several candidate genes associated with bull fertility traits were identified, contributing to early-life selection and genetic improvement strategies. This study also enhances our knowledge of the molecular basis of male fertility in mammals.
Article
Agriculture, Dairy & Animal Science
Antonio Reverter, Laercio Porto-Neto, Brad C. Hine, Pamela A. Alexandre, Malshani Samaraweera, Andrew I. Byrne, Aaron B. Ingham, Christian J. Duff
Summary: Incorporating commercial data into the reference population of Angus SteerSELECT can improve the accuracy and effectiveness of the genomic tool.
ANIMAL PRODUCTION SCIENCE
(2023)
Correction
Agriculture, Dairy & Animal Science
Pamela A. Alexandre, Yutao Li, Brad C. Hine, Christian J. Duff, Aaron B. Ingham, Laercio R. Porto-Neto, Antonio Reverter
GENETICS SELECTION EVOLUTION
(2021)
Article
Agriculture, Dairy & Animal Science
Pamela A. Alexandre, Yutao Li, Brad C. Hine, Christian J. Duff, Aaron B. Ingham, Laercio R. Porto-Neto, Antonio Reverter
Summary: The study focused on improving feedlot performance and carcase traits in Australian Angus cattle through genomic predictions. Results showed potential for accurate genomic selection in these areas, with the linear regression method outperforming traditional methods and providing better ability to differentiate between extreme GEBV quartiles.
GENETICS SELECTION EVOLUTION
(2021)
Article
Agriculture, Dairy & Animal Science
S. Dominik, A. Reverter, L. R. Porto-Neto, J. C. Greeff, J. L. Smith
Summary: This study found that genomic prediction of breeding values for breech flystrike resistance is a feasible tool for applying genomic technology in the Merino industry. A reference population of appropriate size is needed for this trait, and a dispersed reference population could be an effective option.
ANIMAL PRODUCTION SCIENCE
(2021)
Article
Agriculture, Dairy & Animal Science
Antonio Reverter, Brad C. Hine, Laercio Porto-Neto, Pamela A. Alexandre, Yutao Li, Christian J. Duff, Sonja Dominik, Aaron B. Ingham
Summary: The study analyzed immune competence phenotypes and genomic predictions of breeding values in 3715 Australian Angus cattle, showing that immune competence phenotypes are moderately heritable and accurate genomic breeding values can be generated to select cattle with an improved ability to mount a general immune response.
ANIMAL PRODUCTION SCIENCE
(2021)
Article
Agriculture, Dairy & Animal Science
Brad C. Hine, Christian J. Duff, Andrew Byrne, Peter Parnell, Laercio Porto-Neto, Yutao Li, Aaron B. Ingham, Antonio Reverter
Summary: The study confirmed the ability of Angus SteerSELECT genomic product to predict differences in carcass weight, marbling score, ossification score, and carcass value in Australian Angus steers under both short-fed and long-fed conditions.
ANIMAL PRODUCTION SCIENCE
(2021)
Article
Agriculture, Dairy & Animal Science
S. Dominik, C. J. Duff, A. Byrne, H. Daetwyler, A. Reverter
Summary: This study demonstrates that ultra-small SNP panels with 20-23 SNPs can generate unique genotypes for up to approximately 80,000 individuals, providing an efficient method for beef product traceability through the supply chain.
ANIMAL PRODUCTION SCIENCE
(2021)