scholarly journals Comparative Genome Analyses Reveal the Genomic Traits and Host Plant Adaptations of Flavobacterium akiainvivens IK-1T

2019 ◽  
Vol 20 (19) ◽  
pp. 4910
Author(s):  
Xuehua Wan
Keyword(s):  
Plant Interactions ◽  
Secretion Systems ◽  
Two Component System ◽  
Gene Expressions ◽  
Plant Host ◽  
Comparative Genome ◽  
Plant Adaptations ◽  
Factor Type ◽  
Genome Analyses ◽  
Von Willebrand

The genus Flavobacterium contains a large group of commensal bacteria identified in diverse terrestrial and aquatic habitats. We compared the genome of a new species Flavobacterium akiainvivens IK-1T to public available genomes of Flavobacterium species to reveal the genomic traits and ecological roles of IK-1T. Principle component analysis (PCA) of carbohydrate-active enzyme classes suggests that IK-1T belongs to a terrestrial clade of Flavobacterium. In addition, type 2 and type 9 secretion systems involved in bacteria-environment interactions were identified in the IK-1T genome. The IK-1T genome encodes eukaryotic-like domain containing proteins including ankyrin repeats, von Willebrand factor type A domain, and major royal jelly proteins, suggesting that IK-1T may alter plant host physiology by secreting eukaryotic-like proteins that mimic host proteins. A novel two-component system FaRpfC-FaYpdB was identified in the IK-1T genome, which may mediate quorum sensing to regulate global gene expressions. Our findings suggest that comparative genome analyses of Flavobacterium spp. reveal that IK-1T has adapted to a terrestrial niche. Further functional characterizations of IK-1T secreted proteins and their regulation systems will shed light on molecular basis of bacteria-plant interactions in environments.

scholarly journals Molecular Characterization of the Von Willebrand Factor Type D Domain of Vitellogenin from Takifugu flavidus

Marine Drugs ◽  
2021 ◽  
Vol 19 (4) ◽  
pp. 181
Author(s):  
Kun Qiao ◽  
Caiyun Jiang ◽  
Min Xu ◽  
Bei Chen ◽  
Wenhui Qiu ◽  
...  
Keyword(s):  
Amino Acids ◽  
Von Willebrand Factor ◽  
Molecular Mechanisms ◽  
Protein Domain ◽  
Type D ◽  
Protein Toxin ◽  
Factor Type ◽  
Von Willebrand ◽  
Willebrand Factor

The von Willebrand factor type D (VWD) domain in vitellogenin has recently been found to bind tetrodotoxin. The way in which this protein domain associates with tetrodotoxin and participates in transporting tetrodotoxin in vivo remains unclear. A cDNA fragment of the vitellogenin gene containing the VWD domain from pufferfish (Takifugu flavidus) (TfVWD) was cloned. Using in silico structural and docking analyses of the predicted protein, we determined that key amino acids (namely, Val115, ASP116, Val117, and Lys122) in TfVWD mediate its binding to tetrodotoxin, which was supported by in vitro surface plasmon resonance analysis. Moreover, incubating recombinant rTfVWD together with tetrodotoxin attenuated its toxicity in vivo, further supporting protein–toxin binding and indicating associated toxicity-neutralizing effects. Finally, the expression profiling of TfVWD across different tissues and developmental stages indicated that its distribution patterns mirrored those of tetrodotoxin, suggesting that TfVWD may be involved in tetrodotoxin transport in pufferfish. For the first time, this study reveals the amino acids that mediate the binding of TfVWD to tetrodotoxin and provides a basis for further exploration of the molecular mechanisms underlying the enrichment and transfer of tetrodotoxin in pufferfish.

Comparative genome analyses of novel Mangrovimonas -like strains isolated from estuarine mangrove sediments reveal xylan and arabinan utilization genes

2016 ◽  
Vol 25 ◽  
pp. 115-121 ◽  
Author(s):  
Balachandra Dinesh ◽  
Nyok-Sean Lau ◽  
Go Furusawa ◽  
Seok-Won Kim ◽  
Todd D. Taylor ◽  
...  
Keyword(s):  
Mangrove Sediments ◽  
Comparative Genome ◽  
Genome Analyses

scholarly journals The Novel Genes emmABC Are Associated with Exopolysaccharide Production, Motility, Stress Adaptation, and Symbiosis in Sinorhizobium meliloti

2009 ◽  
Vol 191 (19) ◽  
pp. 5890-5900 ◽  
Author(s):  
Jennifer Morris ◽  
Juan E. González
Keyword(s):  
Sinorhizobium Meliloti ◽  
Genetic Factors ◽  
Leguminous Plant ◽  
The Novel ◽  
Two Component System ◽  
Cell Component ◽  
Plant Host ◽  
Free Living ◽  
Novel Genes ◽  
Exopolysaccharide Production

ABSTRACT The nitrogen-fixing symbiont Sinorhizobium meliloti senses and responds to constantly changing environmental conditions as it makes its way through the soil in search of its leguminous plant host, Medicago sativa (alfalfa). As a result, this bacterium regulates various aspects of its physiology in order to respond appropriately to stress, starvation, and competition. For example, exopolysaccharide production, which has been shown to play an important role in the ability of S. meliloti to successfully invade its host, also helps the bacterium withstand osmotic changes and other environmental stresses. In an effort to further elucidate the intricate regulation of this important cell component, we set out to identify genetic factors that may affect its production. Here we characterize novel genes that encode a small protein (EmmA) and a putative two-component system (EmmB-EmmC). A mutation in any of these genes leads to increased production of the symbiotically important exopolysaccharide succinoglycan. In addition, emm mutants display membrane-associated defects, are nonmotile, and are unable to form an optimal symbiosis with alfalfa, suggesting that these novel genes may play a greater role in the overall fitness of S. meliloti both during the free-living stage and in its association with its host.

scholarly journals Whole genome sequence and comparative genome analyses of multi-resistant Staphylococcus warneri GD01 isolated from a diseased pig in China

PLoS ONE ◽  
2020 ◽  
Vol 15 (5) ◽  
pp. e0233363
Author(s):  
Canying Liu ◽  
Xianjie Zhao ◽  
Honglin Xie ◽  
Xi Zhang ◽  
Kangjian Li ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Comparative Genome ◽  
Staphylococcus Warneri ◽  
Genome Analyses

scholarly journals The role of chordin fragments generated by partial tolloid cleavage in regulating BMP activity

2015 ◽  
Vol 43 (5) ◽  
pp. 795-800 ◽  
Author(s):  
Helen Troilo ◽  
Anne L. Barrett ◽  
Alexander P. Wohl ◽  
Thomas A. Jowitt ◽  
Richard F. Collins ◽  
...  
Keyword(s):  
Surface Receptors ◽  
Twisted Gastrulation ◽  
C Terminus ◽  
Morphogenetic Protein ◽  
Recent Developments ◽  
Factor Type ◽  
Bmp Signalling ◽  
Related Proteins ◽  
Von Willebrand ◽  
Willebrand Factor

Chordin-mediated regulation of bone morphogenetic protein (BMP) family growth factors is essential in early embryogenesis and adult homoeostasis. Chordin binds to BMPs through cysteine-rich von Willebrand factor type C (vWC) homology domains and blocks them from interacting with their cell surface receptors. These domains also self-associate and enable chordin to target related proteins to fine-tune BMP regulation. The chordin–BMP inhibitory complex is strengthened by the secreted glycoprotein twisted gastrulation (Tsg); however, inhibition is relieved by cleavage of chordin at two specific sites by tolloid family metalloproteases. As Tsg enhances this cleavage process, it serves a dual role as both promoter and inhibitor of BMP signalling. Recent developments in chordin research suggest that rather than simply being by-products, the cleavage fragments of chordin continue to play a role in BMP regulation. In particular, chordin cleavage at the C-terminus potentiates its anti-BMP activity in a type-specific manner.

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