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Multi-omics framework to reveal the molecular determinants of fermentation performance in wine yeast populations.
Microbiome
October 2024
Department of Genetics, Physiology and Microbiology, Faculty of Biology, Microbiology Unit, Complutense University of Madrid, C/ José Antonio Novais 12, Madrid, 28040, Spain.
Article Synopsis
- This study focuses on understanding how the types of yeast in wine fermentation relate to the flavors and quality of wines produced, highlighting the impact of both environmental factors and farming practices.
- Researchers examined yeast communities in grape musts from various regions and found that the initial yeast composition greatly influences fermentation processes and the resulting wine profiles, rather than just the fermentation conditions applied.
- The study also identified specific gene expressions in different yeast species that contribute to flavor development, suggesting that leveraging diverse yeast functionalities can help produce higher-quality wines tailored to specific preferences.
Meta-transcriptomic analysis reveals the geographical expansion of known sugarbeet-infecting viruses and the occurrence of a novel virus in sugarbeet in the United States.
Front Plant Sci
August 2024
Department of Plant Pathology, North Dakota State University, Fargo, ND, United States.
In this study, meta-transcriptome sequencing was conducted on a total of 18 sugarbeet ( L. subsp) sample libraries to profile the virome of field-grown sugarbeet to identify the occurrence and distribution of known and potentially new viruses from five different states in the United States. Sugarbeet roots with symptoms resembling rhizomania caused by beet necrotic yellow vein virus (BNYVV), or leaves exhibiting leaf-curling, yellowing to browning, or green mosaic were collected from the sugarbeet growing areas of California, Colorado, Idaho, Minnesota, and North Dakota.
View Article and Find Full Text PDFShared and unique transcriptomic signature genes and pathways among biopsy, peripheral blood mononuclear cells and bronchoalveolar lavage samples in IPF patients revealed using comparative meta-transcriptome analysis.
Tuberk Toraks
September 2024
Department of Genetics and Bioengineering, Yeditepe University Faculty of Engineering, İstanbul, Türkiye.
Introduction: Idiopathic pulmonary fibrosis (IPF) affects the tissue surrounding the alveoli and occurs when the lung tissue becomes thick and stiff for unknown reasons. Clinical findings are fairly well settled, but the molecular mechanisms of IPF are still poorly known.
Materials And Methods: To further our understanding, we collected publicly available transcriptome dataset from IPF cohorts, grouped them according to sampling method [bronchoalveolar lavage (BAL), biopsy, blood], and performed comparative meta-transcriptome study to (I) unravel key pathways (II), set out differences in discovered genes, pathways, and functional annotation with respect to the sampling method, and (III) find biomarkers for early diagnosis.
RNA-seq validation: software for selection of reference and variable candidate genes for RT-qPCR.
BMC Genomics
July 2024
Programa de Pós-graduação em Biologia Computacional e Sistemas, Instituto Oswaldo Cruz, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil.
Background: Real-time quantitative PCR (RT-qPCR) is one of the most widely used gene expression analyses for validating RNA-seq data. This technique requires reference genes that are stable and highly expressed, at least across the different biological conditions present in the transcriptome. Reference and variable candidate gene selection is often neglected, leading to misinterpretation of the results.
View Article and Find Full Text PDFNiche-dependent sponge hologenome expression profiles and the host-microbes interplay: a case of the hawaiian demosponge Mycale Grandis.
Environ Microbiome
April 2024
State Key Laboratory of Microbial Metabolism, School of Life Sciences & Biotechnology, Shanghai Jiao Tong University, 200240, Shanghai, P. R. China.
Background: Most researches on sponge holobionts focus primarily on symbiotic microbes, yet data at the level of the sponge hologenome are still relatively scarce. Understanding of the sponge host and its microbial gene expression profiles and the host-microbes interplay in different niches represents a key aspect of sponge hologenome. Using the Hawaiian demosponge Mycale grandis in different niches as a model, i.
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