Article
Plant Sciences
Lucia Barra, Pasquale Termolino, Riccardo Aiese Cigliano, Gaetana Cremona, Rosa Paparo, Carmine Lanzillo, Maria Federica Consiglio, Clara Conicella
Summary: The INTACT method was used to isolate cell-type-specific nuclei, capturing meiotic nuclei in Arabidopsis and generating a meiotic transcriptome. Analysis revealed that DNA demethylation is particularly relevant to meiosis onset. By comparing transcriptomes and conducting gene ontology enrichment analysis, a core set of over 1,500 genes related to meiosis was identified.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Plant Sciences
Abdellah Barakate, Jamie Orr, Miriam Schreiber, Isabelle Colas, Dominika Lewandowska, Nicola McCallum, Malcolm Macaulay, Jenny Morris, Mikel Arrieta, Pete E. Hedley, Luke Ramsay, Robbie Waugh
Summary: In this study, the temporal dynamics of transcript abundance in barley anthers and meiocytes were investigated using RNA-seq, revealing significant transcriptional changes in anthers at the transition from pre-meiosis to leptotene-zygotene and remarkable stability in meiocytes throughout prophase I after the initial reprogramming at meiosis entry. Additionally, only 24% of putative meiotic gene orthologs showed differential transcript abundance, indicating the complexity of regulatory networks involved in early meiotic processes.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Endocrinology & Metabolism
Ling-Ling Wei, Tian-Tian Chen, Bi-Yun Luo, Gao-Feng Qiu
Summary: RPCH and PDH neuropeptides were identified in the brain of the Chinese mitten crab, contributing to physiological processes such as body color changes, circadian rhythm, and ovarian growth. Their expression levels were found to be significantly increased during the vitellogenic stage and decreased during the meiotic maturation stage. The administration of Es-RPCH and Es-beta-PDH peptides induced changes in vitellogenic oocytes and ovarian transcriptome in E. sinensis.
FRONTIERS IN ENDOCRINOLOGY
(2021)
Article
Forestry
Xiatong Liu, Tianfeng Liu, Chong Zhang, Xiaorui Guo, Song Guo, Hai Lu, Hui Li, Zailiu Li
Summary: The molecular mechanism of stamen abortion underlying sex differentiation in Handeliodendron bodinieri was elucidated through research, providing a theoretical foundation for its conservation, breeding, scientific research, and application.
Article
Plant Sciences
Gwonjin Lee, Hassan Ahmadi, Julia Quintana, Lara Syllwasschy, Nadezda Janina, Veronica Preite, Justin E. Anderson, Bjorn Pietzenuk, Ute Kramer
Summary: The study found that Arabidopsis halleri exhibits higher tolerance and regulation of cadmium accumulation in heavy metal-contaminated soils, with decreased transcriptomic response to cadmium. Plants from highly metalliferous soils show elevated AGO9 and HMA2 transcript levels, which may contribute to their adaptation to extreme abiotic stress.
Article
Cell Biology
Hao-Lin Zhang, Yi Xu, Jia-Qian Ju, Zhen-Nan Pan, Jing-Cai Liu, Shao-Chen Sun
Summary: This study compared the global RNA transcription pattern of oocytes from in vitro and in vivo maturation, identifying 1,864 differentially expressed genes. The changes were mainly related to environmental adaption, metabolism, and genetic expression processes, suggesting that in vitro maturation of mouse oocytes resulted in metabolism and genetic expression changes due to environmental differences compared with in vivo matured oocytes.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Fisheries
Xi Wu, Yang Yang, Tong Wang, Chaoyue Zhong, Yuhao Tao, Leyi Chang, Zining Meng, Xiaochun Liu
Summary: In this study, transcriptome sequencing of brown-marbled grouper at 117 dph and 259 dph was performed to investigate the molecular mechanism of sex differentiation. The results showed that genes in the retinoic acid signal pathway are involved in the early stage of sex differentiation. Histological observations revealed the classification of germ cells in the 259 dph gonad into six stages. Additionally, male-related genes such as gsdf, sox9, dmrt1, and dmrt3 may play roles in sex differentiation. This study provides valuable information for understanding the molecular mechanism of sex differentiation in fish.
AQUACULTURE REPORTS
(2023)
Article
Cell Biology
Peter Z. Schall, Keith E. Latham
Summary: Oogenesis is a complex process resulting in the production of a truly remarkable cell – the oocyte. Different species exhibit considerable divergence in oocyte transcriptome handling during maturation, but correct downregulation of mRNAs related to oxidative phosphorylation and mitochondrial function is a major shared feature of mammalian oocyte maturation.
AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY
(2021)
Article
Cell Biology
Meghan L. Ruebel, Filippo Zambelli, Peter Z. Schall, Montserrat Barragan, Catherine A. VandeVoort, Rita Vassena, Keith E. Latham
Summary: Research identified shared transcriptome abnormalities in rhesus monkey and human failed-to-mature (FTM) oocytes, including effects on mitochondrial function, oxidative phosphorylation (OxPhos), lipid metabolism, and other cellular functions. These results suggest fundamental aspects of cellular function are abnormal in FTM oocytes and raise concerns about using them for assisted reproduction technology (ART).
PHYSIOLOGICAL GENOMICS
(2021)
Article
Biochemistry & Molecular Biology
Ninel M. M. Vainshelbaum, Alessandro Giuliani, Kristine Salmina, Dace Pjanova, Jekaterina Erenpreisa
Summary: The expression of gametogenesis-related genes and proteins, as well as whole genome duplications, is associated with poor prognosis in cancer. A bioinformatics analysis of these genes reveals their upregulation in somatic cancers with whole genome duplications, as well as their ability to form interaction networks and enrich reproductive modules. Phylostratigraphy analysis shows that these genes have early eukaryotic and early multicellular organism origins.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Allergy
Alain Lefevre-Utile, Melissa Saichi, Peter Olah, Marc Delord, Bernhard Homey, Vassili Soumelis
Summary: The study identified 4 endotypes of AD and discovered key gene sets associated with specific biological pathways. There were significant differences in disease severity and S. aureus colonization between different clusters. These findings could potentially provide new insights into personalized treatment strategies.
Article
Plant Sciences
Chengyan Ji, Zhaoran Tian, Yue Liu, Gongyao Shi, Baoming Tian, Weiwei Chen, Zhengqing Xie, Xingzhou Han, Niannian Liang, Fang Wei, Xiaochun Wei
Summary: This study provides a detailed atlas of gene expression for gamete development in newly synthetic Brassica allohexaploids. The study identified a large number of differentially expressed genes associated with gamete development and identified candidate genes related to meiosis, recombination, sporopollenin biosynthesis, and tapetum and pollen wall development.
Article
Cardiac & Cardiovascular Systems
Job A. J. Verdonschot, Ping Wang, Kasper W. J. Derks, Michiel E. Adriaens, Sophie L. V. M. Stroeks, Michiel T. H. M. Henkens, Anne G. Raafs, Maurits Sikking, Bart de Koning, Arthur van den Wijngaard, Ingrid P. C. Krapels, Miranda Nabben, Han G. Brunner, Stephane R. B. Heymans
Summary: Dilated cardiomyopathy is a heterogeneous disease with multiple genetic and environmental causes. By analyzing genotype, phenotype, and cardiac transcriptome data, patient subgroups with shared pathophysiology can be identified, guiding personalized treatment.
JACC-BASIC TO TRANSLATIONAL SCIENCE
(2023)
Article
Biochemical Research Methods
Guoxin Cai, Wenyi Zhao, Zhan Zhou, Xun Gu
Summary: In this study, a novel approach called MATTE was introduced to analyze transcriptomics data and identify differences in a modular manner. MATTE assumes that gene interactions modulate a phenotype and models phenotype differences as gene location changes. The results demonstrate that MATTE outperformed state-of-the-art methods in identifying differentially expressed genes and could also handle single-cell RNA-seq data.
BRIEFINGS IN BIOINFORMATICS
(2023)
Article
Medicine, Research & Experimental
Mei Wang, Yanwen Xu, Yuncong Zhang, Yuhan Chen, Gang Chang, Geng An, Xinyan Yang, Caihong Zheng, Jiexiang Zhao, Zhaoting Liu, Dazhuang Wang, Kai Miao, Shuan Rao, Meng Dai, Dong Wang, Xiao-Yang Zhao
Summary: Autophagy plays a crucial role in spermatogenesis, with dysregulation of autophagy-related genes possibly contributing to male infertility. The study identified a unique global stage-specific enrichment of autophagy-related genes during human spermatogenesis and highlighted the importance of Cst3 in SSC maintenance and male germ cell development. The findings suggest a conservation of stage-specific expression pattern of autophagy-related genes in mammals and provide insights into potential therapeutic targets for male infertility.
