Comparative genomics hints at dispensability of multiple essential genes in two E. coli L-form strains
In this study, the genomes of two stable L-form strains of E. coli (NC-7 and LWF+) were sequenced and their gene mutation status was determined and compared to their parental strains. Comparative genomic analysis between two L-forms reveals both unique adaptions and common mutated genes, many of which belong to essential gene categories not involved in cell wall biosynthesis, indicating that L-form genetic adaptation impacts crucial metabolic pathways. Missense variants from L-forms and Lenski's long-term evolution experiment (LTEE) were analyzed in parallel using an optimized DeepSequence pipeline to investigate predicted...
Source: Bioscience Reports - October 11, 2023 Category: Biomedical Science Authors: Yunfei Liu Yueyue Zhang Chen Kang Di Tian Hui Lu Bo-Ying Xu Yang Xia Akiko Kashiwagi Martin Westermann Christian Hoischen Jian Xu Tetsuya Yomo Source Type: research
Comparative genomics hints at dispensability of multiple essential genes in two E. coli L-form strains
In this study, the genomes of two stable L-form strains of E. coli (NC-7 and LWF+) were sequenced and their gene mutation status was determined and compared to their parental strains. Comparative genomic analysis between two L-forms reveals both unique adaptions and common mutated genes, many of which belong to essential gene categories not involved in cell wall biosynthesis, indicating that L-form genetic adaptation impacts crucial metabolic pathways. Missense variants from L-forms and Lenski's long-term evolution experiment (LTEE) were analyzed in parallel using an optimized DeepSequence pipeline to investigate predicted...
Source: Bioscience Reports - October 11, 2023 Category: Biomedical Science Authors: Yunfei Liu Yueyue Zhang Chen Kang Di Tian Hui Lu Bo-Ying Xu Yang Xia Akiko Kashiwagi Martin Westermann Christian Hoischen Jian Xu Tetsuya Yomo Source Type: research
Comparative genomics hints at dispensability of multiple essential genes in two E. coli L-form strains
In this study, the genomes of two stable L-form strains of E. coli (NC-7 and LWF+) were sequenced and their gene mutation status was determined and compared to their parental strains. Comparative genomic analysis between two L-forms reveals both unique adaptions and common mutated genes, many of which belong to essential gene categories not involved in cell wall biosynthesis, indicating that L-form genetic adaptation impacts crucial metabolic pathways. Missense variants from L-forms and Lenski's long-term evolution experiment (LTEE) were analyzed in parallel using an optimized DeepSequence pipeline to investigate predicted...
Source: Bioscience Reports - October 11, 2023 Category: Biomedical Science Authors: Yunfei Liu Yueyue Zhang Chen Kang Di Tian Hui Lu Bo-Ying Xu Yang Xia Akiko Kashiwagi Martin Westermann Christian Hoischen Jian Xu Tetsuya Yomo Source Type: research
Comparative genomics hints at dispensability of multiple essential genes in two E. coli L-form strains
In this study, the genomes of two stable L-form strains of E. coli (NC-7 and LWF+) were sequenced and their gene mutation status was determined and compared to their parental strains. Comparative genomic analysis between two L-forms reveals both unique adaptions and common mutated genes, many of which belong to essential gene categories not involved in cell wall biosynthesis, indicating that L-form genetic adaptation impacts crucial metabolic pathways. Missense variants from L-forms and Lenski's long-term evolution experiment (LTEE) were analyzed in parallel using an optimized DeepSequence pipeline to investigate predicted...
Source: Bioscience Reports - October 11, 2023 Category: Biomedical Science Authors: Yunfei Liu Yueyue Zhang Chen Kang Di Tian Hui Lu Bo-Ying Xu Yang Xia Akiko Kashiwagi Martin Westermann Christian Hoischen Jian Xu Tetsuya Yomo Source Type: research
Comparative genomics hints at dispensability of multiple essential genes in two E. coli L-form strains
In this study, the genomes of two stable L-form strains of E. coli (NC-7 and LWF+) were sequenced and their gene mutation status was determined and compared to their parental strains. Comparative genomic analysis between two L-forms reveals both unique adaptions and common mutated genes, many of which belong to essential gene categories not involved in cell wall biosynthesis, indicating that L-form genetic adaptation impacts crucial metabolic pathways. Missense variants from L-forms and Lenski's long-term evolution experiment (LTEE) were analyzed in parallel using an optimized DeepSequence pipeline to investigate predicted...
Source: Bioscience Reports - October 11, 2023 Category: Biomedical Science Authors: Yunfei Liu Yueyue Zhang Chen Kang Di Tian Hui Lu Bo-Ying Xu Yang Xia Akiko Kashiwagi Martin Westermann Christian Hoischen Jian Xu Tetsuya Yomo Source Type: research
Assessing the dynamics and macromolecular interactions of the intrinsically disordered protein YY1
Biosci Rep. 2023 Oct 10:BSR20231295. doi: 10.1042/BSR20231295. Online ahead of print.ABSTRACTYY1 is a ubiquitously expressed, intrinsically disordered transcription factor involved in neural development. The oligomeric state of YY1 varies depending on the environment. These structural changes may alter its DNA binding ability and hence its transcriptional activity. Just as YY1's oligomeric state can impact its role in transcription, so does its interaction with other proteins such as FOXP2. The aim of this work is to study the structure and dynamics of YY1 so as to determine the influence of oligomerisation and association...
Source: Bioscience Reports - October 10, 2023 Category: Biomedical Science Authors: Heather L Donald Ashleigh A Blane Sindisiwe Buthelezi Previn Naicker Stoyan Stoychev Jacob Majakwara Sylvia Fanucchi Source Type: research
Assessing the dynamics and macromolecular interactions of the intrinsically disordered protein YY1
Biosci Rep. 2023 Oct 10:BSR20231295. doi: 10.1042/BSR20231295. Online ahead of print.ABSTRACTYY1 is a ubiquitously expressed, intrinsically disordered transcription factor involved in neural development. The oligomeric state of YY1 varies depending on the environment. These structural changes may alter its DNA binding ability and hence its transcriptional activity. Just as YY1's oligomeric state can impact its role in transcription, so does its interaction with other proteins such as FOXP2. The aim of this work is to study the structure and dynamics of YY1 so as to determine the influence of oligomerisation and association...
Source: Bioscience Reports - October 10, 2023 Category: Biomedical Science Authors: Heather L Donald Ashleigh A Blane Sindisiwe Buthelezi Previn Naicker Stoyan Stoychev Jacob Majakwara Sylvia Fanucchi Source Type: research
Regulatory T cells in lung disease and transplantation
Biosci Rep. 2023 Oct 5:BSR20231331. doi: 10.1042/BSR20231331. Online ahead of print.ABSTRACTPulmonary disease can refer to the disease of the lung itself or the pulmonary manifestations of systemic diseases, which are often connected to the malfunction of the immune system. Regulatory T (Treg) cells have been shown to be important in maintaining immune homeostasis and preventing inflammatory damage, including lung diseases. Given the increasing amount of evidence linking Treg cells to various pulmonary conditions, Treg cells might serve as a therapeutic strategy for the treatment of lung diseases and potentially promote lu...
Source: Bioscience Reports - October 5, 2023 Category: Biomedical Science Authors: Peizhen Lao Jingyi Chen Longqian Tang Jiwen Zhang Yuxi Chen Yuyin Fang Xingliang Fan Source Type: research
Cell organelles are retained inside pyroptotic corpses during inflammatory cell death
Biosci Rep. 2023 Oct 5:BSR20231265. doi: 10.1042/BSR20231265. Online ahead of print.ABSTRACTMany proinflammatory proteins are released via the necrotic form of cell death known as pyroptosis. Sometimes known as gasdermin D (GSDMD) dependent cell death, pyroptosis results from the formation of pores in the plasma membrane leading to eventual cell lysis. Seeking to understand the magnitude of this cell lysis we measured the size of proteins released during pyroptosis. We demonstrate that there is no restriction on the size of soluble proteins released during pyroptosis even at early timepoints. However, even though large mol...
Source: Bioscience Reports - October 5, 2023 Category: Biomedical Science Authors: Anne Hempel Andrea D'Osualdo Scott Joseph Snipas Guy S Salvesen Source Type: research
Regulatory T cells in lung disease and transplantation
Biosci Rep. 2023 Oct 5:BSR20231331. doi: 10.1042/BSR20231331. Online ahead of print.ABSTRACTPulmonary disease can refer to the disease of the lung itself or the pulmonary manifestations of systemic diseases, which are often connected to the malfunction of the immune system. Regulatory T (Treg) cells have been shown to be important in maintaining immune homeostasis and preventing inflammatory damage, including lung diseases. Given the increasing amount of evidence linking Treg cells to various pulmonary conditions, Treg cells might serve as a therapeutic strategy for the treatment of lung diseases and potentially promote lu...
Source: Bioscience Reports - October 5, 2023 Category: Biomedical Science Authors: Peizhen Lao Jingyi Chen Longqian Tang Jiwen Zhang Yuxi Chen Yuyin Fang Xingliang Fan Source Type: research
Cell organelles are retained inside pyroptotic corpses during inflammatory cell death
Biosci Rep. 2023 Oct 5:BSR20231265. doi: 10.1042/BSR20231265. Online ahead of print.ABSTRACTMany proinflammatory proteins are released via the necrotic form of cell death known as pyroptosis. Sometimes known as gasdermin D (GSDMD) dependent cell death, pyroptosis results from the formation of pores in the plasma membrane leading to eventual cell lysis. Seeking to understand the magnitude of this cell lysis we measured the size of proteins released during pyroptosis. We demonstrate that there is no restriction on the size of soluble proteins released during pyroptosis even at early timepoints. However, even though large mol...
Source: Bioscience Reports - October 5, 2023 Category: Biomedical Science Authors: Anne Hempel Andrea D'Osualdo Scott Joseph Snipas Guy S Salvesen Source Type: research
Regulatory T cells in lung disease and transplantation
Biosci Rep. 2023 Oct 5:BSR20231331. doi: 10.1042/BSR20231331. Online ahead of print.ABSTRACTPulmonary disease can refer to the disease of the lung itself or the pulmonary manifestations of systemic diseases, which are often connected to the malfunction of the immune system. Regulatory T (Treg) cells have been shown to be important in maintaining immune homeostasis and preventing inflammatory damage, including lung diseases. Given the increasing amount of evidence linking Treg cells to various pulmonary conditions, Treg cells might serve as a therapeutic strategy for the treatment of lung diseases and potentially promote lu...
Source: Bioscience Reports - October 5, 2023 Category: Biomedical Science Authors: Peizhen Lao Jingyi Chen Longqian Tang Jiwen Zhang Yuxi Chen Yuyin Fang Xingliang Fan Source Type: research
Cell organelles are retained inside pyroptotic corpses during inflammatory cell death
Biosci Rep. 2023 Oct 5:BSR20231265. doi: 10.1042/BSR20231265. Online ahead of print.ABSTRACTMany proinflammatory proteins are released via the necrotic form of cell death known as pyroptosis. Sometimes known as gasdermin D (GSDMD) dependent cell death, pyroptosis results from the formation of pores in the plasma membrane leading to eventual cell lysis. Seeking to understand the magnitude of this cell lysis we measured the size of proteins released during pyroptosis. We demonstrate that there is no restriction on the size of soluble proteins released during pyroptosis even at early timepoints. However, even though large mol...
Source: Bioscience Reports - October 5, 2023 Category: Biomedical Science Authors: Anne Hempel Andrea D'Osualdo Scott Joseph Snipas Guy S Salvesen Source Type: research
Regulatory T cells in lung disease and transplantation
Biosci Rep. 2023 Oct 5:BSR20231331. doi: 10.1042/BSR20231331. Online ahead of print.ABSTRACTPulmonary disease can refer to the disease of the lung itself or the pulmonary manifestations of systemic diseases, which are often connected to the malfunction of the immune system. Regulatory T (Treg) cells have been shown to be important in maintaining immune homeostasis and preventing inflammatory damage, including lung diseases. Given the increasing amount of evidence linking Treg cells to various pulmonary conditions, Treg cells might serve as a therapeutic strategy for the treatment of lung diseases and potentially promote lu...
Source: Bioscience Reports - October 5, 2023 Category: Biomedical Science Authors: Peizhen Lao Jingyi Chen Longqian Tang Jiwen Zhang Yuxi Chen Yuyin Fang Xingliang Fan Source Type: research
Cell organelles are retained inside pyroptotic corpses during inflammatory cell death
Biosci Rep. 2023 Oct 5:BSR20231265. doi: 10.1042/BSR20231265. Online ahead of print.ABSTRACTMany proinflammatory proteins are released via the necrotic form of cell death known as pyroptosis. Sometimes known as gasdermin D (GSDMD) dependent cell death, pyroptosis results from the formation of pores in the plasma membrane leading to eventual cell lysis. Seeking to understand the magnitude of this cell lysis we measured the size of proteins released during pyroptosis. We demonstrate that there is no restriction on the size of soluble proteins released during pyroptosis even at early timepoints. However, even though large mol...
Source: Bioscience Reports - October 5, 2023 Category: Biomedical Science Authors: Anne Hempel Andrea D'Osualdo Scott Joseph Snipas Guy S Salvesen Source Type: research
