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Gene fusion/fission is a major contributor to evolution of multi-domain bacterial proteins
2006
Bioinformatics
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We conclude that gene fusion/fission is a major contributor to the evolution of multi-domain bacterial proteins. ...
We provide evidence showing that the contribution of gene fusion/fission to the evolution of multi-domain bacterial proteins is lower-bounded by 27% and upper-bounded by 64%. ...
ACKNOWLEDGEMENTS The authors are grateful to Jean-Luc Ferat, Meriem El Karoui and to the members of ABI (University of Paris VI) for helpful discussions. ...
doi:10.1093/bioinformatics/btl135
pmid:16601004
fatcat:gqgrh7v2yzbo3iiuj4xzwglydm
The draft nuclear genome sequence and predicted mitochondrial proteome of Andalucia godoyi, a protist with the most gene-rich and bacteria-like mitochondrial genome
2020
BMC Biology
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In this regard, a key group is the jakobids, a clade of protists belonging to the eukaryotic supergroup Discoba, distinguished by having the most gene-rich and most bacteria-like mitochondrial genomes ...
of this protist, identifying 864 candidate mitochondrial proteins. ...
is mediated by a mtDNA-encoded, bacterial-type, multi-subunit RNAP. ...
doi:10.1186/s12915-020-0741-6
pmid:32122349
pmcid:PMC7050145
fatcat:g55whedl2bdibow3nt2tbbyu6i
The evolution of bacterial mechanosensitive channels
2015
Cell Calcium
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The MscS family of proteins displays considerable plasticity in their current forms and the variants may have arisen by a variety of routes, including duplication, fusion, fission and evolved expression ...
The exception is ybdG in Klebsiella, which appears to have been transposed and now lies between lacI and a gene for a major facilitator membrane protein. ...
doi:10.1016/j.ceca.2014.12.011
pmid:25591932
fatcat:6ll2r6i3ofc75blwxeaatd3myu
Division of labour in a matrix, rather than phagocytosis or endosymbiosis, as a route for the origin of eukaryotic cells
2020
Biology Direct
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The model is compatible with the loss of archaeal lipid biochemistry while retaining archaeal genes and provides a route for the development of membranous organelles such as the Golgi apparatus and endoplasmic ...
A version is presented in which an extracellular space (the third-space), serves as a proxy cytoplasm for mixed populations of archaea and bacteria to "merge" as a transitionary complex without obligatory ...
, allows increased cell fusion (a relic of which is the fusion/fission cycle of extant mitochondria) and this further amplifies the exchange of genetic material until structures (called here multi-genomes ...
doi:10.1186/s13062-020-00260-9
pmid:32345370
fatcat:623ydkd7affufiuzo6l2kqbtye
Phylogenetic Profiling of Mitochondrial Proteins and Integration Analysis of Bacterial Transcription Units Suggest Evolution of F1Fo ATP Synthase from Multiple Modules
2017
Journal of Molecular Evolution
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contributor to evolution of multi-domain bacterial proteins. ...
Biochim Biophys Acta 1757(9–10):1400–1405 Pasek S, Risler JL, Brezellec P (2006) Gene fusion/fission is a major
Huynen M, Snel B, Lathe W 3rd, Bork P (2000) Predicting protein ...
doi:10.1007/s00239-017-9819-3
pmid:29177973
pmcid:PMC5709465
fatcat:v6dyqv5unbfnfermrcbgxrvvp4
Bioinformatics in microbial biotechnology--a mini review
2005
Microbial Cell Factories
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to administer vaccines, the development of protein biomarkers for various bacterial diseases, and better understanding of host-bacteria interaction to prevent bacterial infections. ...
Despite the fast paced global effort, the current analysis is limited by the lack of available gene-functionality from the wet-lab data, the lack of computer algorithms to explore vast amount of data with ...
Acknowledgements Due to the limited scope of this review, the author was restricted to acknowledge a small number of relevant publications contributing directly to microbial bioinformatics. ...
doi:10.1186/1475-2859-4-19
pmid:15985162
pmcid:PMC1182391
fatcat:yhfb3z3e2zhoxd6yucafktp2gu
The ParA's function is realized by two separate proteins in the partitioning system of Myxococcus plasmid pMF1
[article]
2020
bioRxiv
pre-print
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The par operon in the sole myxobacterial plasmid pMF1 includes a function-unknown parC gene in front of the classical parA and parB genes. ...
The present results highlight that ParC functions as a part of ParA to support its soluble expression and function, and the separation of ParC and ParA into two proteins in structure enables the ParC ' ...
Gene fusion/fission is a major contributor to 511 evolution of multi-domain bacterial proteins. Bioinformatics. 2006;22(12):1418-512 1423. ...
doi:10.1101/2020.07.24.219303
fatcat:x42h45kaujhktmrkztc7tgjbwm
ParC, a New Partitioning Protein, Is Necessary for the Active Form of ParA From Myxococcus pMF1 Plasmid
2021
Frontiers in Microbiology
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The results highlight that proximal location of parC before parA is critical to realize the functions of ParA in the partition of Myxococcus plasmid pMF1 and shed light on a new mechanism to realize a ...
The pMF1 plasmid from Myxococcus fulvus 124B02 has a par operon encoding a small acidic protein, ParC, in addition to type I ParA and ParB homologs. ...
Gene fusion/fission is a major contributor to the evolution of multi-domain proteins (Pasek et al., 2006) . ...
doi:10.3389/fmicb.2020.623699
pmid:33519784
pmcid:PMC7843461
fatcat:g4ajgoqudfdkzonuef5idektb4
Synthaser: a CD-Search enabled Python toolkit for analysing domain architecture of fungal secondary metabolite megasynth(et)ases
2021
Fungal Biology and Biotechnology
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Conclusions Synthaser is an easy to use tool that represents a significant upgrade to previous domain architecture analysis tools. ...
The backbones of a large proportion of fungal SMs are generated through the action of large, multi-domain megasynth(et)ases such as polyketide synthases (PKSs) and nonribosomal peptide synthetases (NRPSs ...
fusion, fission, duplication and exon shuffling [3] [4] [5] . ...
doi:10.1186/s40694-021-00120-9
pmid:34763725
pmcid:PMC8582187
fatcat:tsln7hrhnbguzjj2mxmibsj3fm
Identification of polycistronic transcriptional units and non-canonical introns in green algal chloroplasts based on long-read RNA sequencing data
2021
BMC Genomics
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In addition to clusters of genes from the same pathway, we identified a series of PTUs of up to nine genes whose function in the plastid is not understood. ...
Our data also revealed a type of non-canonical Group II introns, with a deviant secondary structure and intronic ORFs lacking known splicing or mobility domains. ...
Acknowledgements We are very grateful to Peng Li, Fengshou Wang ...
doi:10.1186/s12864-021-07598-y
pmid:33892645
fatcat:6r22hy3m7ffppm7qy2wfaaclkq
Role of phospholipid signalling in plant environmental responses
2015
Environmental and Experimental Botany
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The conversion of lipids is catalysed by the hydrolytic activity of phospholipases and by the action of lipid-kinases and lipid-phosphatases. ...
Together they shape cell metabolism via binding to downstream protein targets, thus affecting enzymatic activities, vesicle trafficking and ion fluxes. ...
We would like to thank Prof. Jill Farrant (Department of Molecular and Cell Biology, University of Cape Town, South Africa) for carefully reading the manuscript. ...
doi:10.1016/j.envexpbot.2014.08.009
fatcat:6szixt3fu5egzaitwr3etiqelq
Dealing with Stress: Defective Metabolic Adaptation in Chronic Obstructive Pulmonary Disease Pathogenesis
2017
Annals of the American Thoracic Society
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During evolution, a considerable 67 proportion of the bacterial genome was transferred to the eukaryotic nucleus. ...
Thus, the majority of 68 mitochondrial proteins are encoded by the nuclear genome (10). ...
into linear or branched networks as a result of continuous cycles of fission and fusion, mediated by 157 multi-domain dynamin-related GTPases (30). ...
doi:10.1513/annalsats.201702-153aw
pmid:29161091
pmcid:PMC5711272
fatcat:qwsrivozkrgctbeld6bditjswq
The rise of mitochondria in medicine
2016
Mitochondrion (Amsterdam. Print)
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Increasing knowledge of the bioenergetic aspects of human disease has provided new opportunities for diagnosis, therapy, prevention, and in connecting various domains of medicine. ...
In this article, we overview specific aspects of mitochondrial biology that have contributed to -and likely will continue to enhance the progress of modern medicine. ...
., sedentary behavior) is a major risk factor for AD. ...
doi:10.1016/j.mito.2016.07.003
pmid:27423788
pmcid:PMC5023480
fatcat:eusmoxj6xzepfmhoyjjgpdupju
Abstracts of the 48th Annual CSBMCB Meeting / Résumés de la 48e assemblée annuelle de la SCBBMC
2005
Biochemistry and Cell Biology
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Fritzler 767 The role of protein synthesis in the regulation of mRNA partitioning to the endoplasmic reticulum R.S. Lerner, M.C. Reedy, and C.V. ...
766 Characterization of a novel cytoplasmic organelle, GW bodies, as a site of mRNA localization in normal and malignant breast cell lines and tissues L.M. Luft, E.K.L. Chan, M.J. ...
We identified Hrr25p, a casein kinase that distributes to numerous cellular structures including spindle pole bodies, as a major contributor to Nup53p phosphorylation. ...
doi:10.1139/o05-907
fatcat:ioe6ipip45hzxnhmxus4egg7te
2017 ASCB Annual Meeting Abstracts
2017
Molecular Biology of the Cell
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Another discovery was the identification of a new lysosomal sorting pathway for GPCRs that requires ALG-interacting protein (ALIX) and arrestin-related domain containing protein-3 (ARRDC3). ...
The ubiquitin ligase Rsp5, the yeast homolog of human Nedd4, is a key mediator of protein quality control at the PM. ...
dynamic pool of actin and its mode of coupling to inner-leaflet lipids is lacking. ...
doi:10.1091/mbc.e17-10-0618
pmid:29237772
pmcid:PMC5739290
fatcat:3msjrn3omzcybfanlagykayauy
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