Ribosome Profiling and RNA Sequencing Reveal Genome-Wide Cellular Translation and Transcription Regulation Under Osmotic Stress in Lactobacillus rhamnosus ATCC 53103

To determine whether osmotic pressure affects the translation efficiency of Lactobacillus rhamnosus, the ribosome profiling assay was performed to analyze the changes in translation efficiency in L. rhamnosus ATCC 53103. Under osmotic stress, differentially expressed genes (DEGs) involved in fatty a...

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Autores principales:	Xuejing Fan, Tianyu Bao, Huaxi Yi, Zongcai Zhang, Kenan Zhang, Xin Liu, Xue Lin, Zhen Zhang, Zhen Feng
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	L. rhamnosus ribosome profiling osmotic stress translation regulation translation efficiency Microbiology QR1-502
Acceso en línea:	https://doaj.org/article/95b83b21b7374d7bafa2da8a95ab426b
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spelling	oai:doaj.org-article:95b83b21b7374d7bafa2da8a95ab426b2021-12-01T02:07:46ZRibosome Profiling and RNA Sequencing Reveal Genome-Wide Cellular Translation and Transcription Regulation Under Osmotic Stress in Lactobacillus rhamnosus ATCC 531031664-302X10.3389/fmicb.2021.781454https://doaj.org/article/95b83b21b7374d7bafa2da8a95ab426b2021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fmicb.2021.781454/fullhttps://doaj.org/toc/1664-302XTo determine whether osmotic pressure affects the translation efficiency of Lactobacillus rhamnosus, the ribosome profiling assay was performed to analyze the changes in translation efficiency in L. rhamnosus ATCC 53103. Under osmotic stress, differentially expressed genes (DEGs) involved in fatty acid biosynthesis and metabolism, ribosome, and purine metabolism pathways were co-regulated with consistent expression direction at translation and transcription levels. DEGs involved in the biosynthesis of phenylalanine, tyrosine, and tryptophan, and the phosphotransferase system pathways also were co-regulated at translation and transcription levels, while they showed opposite expression direction at two levels. Moreover, DEGs involved in the two-component system, amino acid metabolism, and pyruvate metabolism pathways were only regulated at the transcription level. And DEGs involved in fructose and mannose metabolism were only regulated at the translation level. The translation efficiency of DEGs involved in the biosynthesis of amino acids was downregulated while in quorum sensing and PTS pathways was upregulated. In addition, the ribosome footprints accumulated in open reading frame regions resulted in impaired translation initiation and elongation under osmotic stress. In summary, L. rhamnosus ATCC 53103 could respond to osmotic stress by translation regulation and control the balance between survival and growth of cells by transcription and translation.Xuejing FanTianyu BaoHuaxi YiZongcai ZhangKenan ZhangXin LiuXue LinZhen ZhangZhen FengZhen FengFrontiers Media S.A.articleL. rhamnosusribosome profilingosmotic stresstranslation regulationtranslation efficiencyMicrobiologyQR1-502ENFrontiers in Microbiology, Vol 12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	L. rhamnosus ribosome profiling osmotic stress translation regulation translation efficiency Microbiology QR1-502
spellingShingle	L. rhamnosus ribosome profiling osmotic stress translation regulation translation efficiency Microbiology QR1-502 Xuejing Fan Tianyu Bao Huaxi Yi Zongcai Zhang Kenan Zhang Xin Liu Xue Lin Zhen Zhang Zhen Feng Zhen Feng Ribosome Profiling and RNA Sequencing Reveal Genome-Wide Cellular Translation and Transcription Regulation Under Osmotic Stress in Lactobacillus rhamnosus ATCC 53103
description	To determine whether osmotic pressure affects the translation efficiency of Lactobacillus rhamnosus, the ribosome profiling assay was performed to analyze the changes in translation efficiency in L. rhamnosus ATCC 53103. Under osmotic stress, differentially expressed genes (DEGs) involved in fatty acid biosynthesis and metabolism, ribosome, and purine metabolism pathways were co-regulated with consistent expression direction at translation and transcription levels. DEGs involved in the biosynthesis of phenylalanine, tyrosine, and tryptophan, and the phosphotransferase system pathways also were co-regulated at translation and transcription levels, while they showed opposite expression direction at two levels. Moreover, DEGs involved in the two-component system, amino acid metabolism, and pyruvate metabolism pathways were only regulated at the transcription level. And DEGs involved in fructose and mannose metabolism were only regulated at the translation level. The translation efficiency of DEGs involved in the biosynthesis of amino acids was downregulated while in quorum sensing and PTS pathways was upregulated. In addition, the ribosome footprints accumulated in open reading frame regions resulted in impaired translation initiation and elongation under osmotic stress. In summary, L. rhamnosus ATCC 53103 could respond to osmotic stress by translation regulation and control the balance between survival and growth of cells by transcription and translation.
format	article
author	Xuejing Fan Tianyu Bao Huaxi Yi Zongcai Zhang Kenan Zhang Xin Liu Xue Lin Zhen Zhang Zhen Feng Zhen Feng
author_facet	Xuejing Fan Tianyu Bao Huaxi Yi Zongcai Zhang Kenan Zhang Xin Liu Xue Lin Zhen Zhang Zhen Feng Zhen Feng
author_sort	Xuejing Fan
title	Ribosome Profiling and RNA Sequencing Reveal Genome-Wide Cellular Translation and Transcription Regulation Under Osmotic Stress in Lactobacillus rhamnosus ATCC 53103
title_short	Ribosome Profiling and RNA Sequencing Reveal Genome-Wide Cellular Translation and Transcription Regulation Under Osmotic Stress in Lactobacillus rhamnosus ATCC 53103
title_full	Ribosome Profiling and RNA Sequencing Reveal Genome-Wide Cellular Translation and Transcription Regulation Under Osmotic Stress in Lactobacillus rhamnosus ATCC 53103
title_fullStr	Ribosome Profiling and RNA Sequencing Reveal Genome-Wide Cellular Translation and Transcription Regulation Under Osmotic Stress in Lactobacillus rhamnosus ATCC 53103
title_full_unstemmed	Ribosome Profiling and RNA Sequencing Reveal Genome-Wide Cellular Translation and Transcription Regulation Under Osmotic Stress in Lactobacillus rhamnosus ATCC 53103
title_sort	ribosome profiling and rna sequencing reveal genome-wide cellular translation and transcription regulation under osmotic stress in lactobacillus rhamnosus atcc 53103
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/95b83b21b7374d7bafa2da8a95ab426b
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Ribosome Profiling and RNA Sequencing Reveal Genome-Wide Cellular Translation and Transcription Regulation Under Osmotic Stress in Lactobacillus rhamnosus ATCC 53103

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