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Plant phylogenomics based on genome-partitioning strategies: Progress and prospects

Plant Diversity, 2018
The rapid expansion of next-generation sequencing (NGS) has generated a powerful array of approaches to address fundamental questions in biology. Several genome-partitioning strategies to sequence selected subsets of the genome have emerged in the fields
Cen Guo
exaly   +3 more sources

ToRQuEMaDA: tool for retrieving queried Eubacteria, metadata and dereplicating assemblies [PDF]

PeerJ, 2021
TQMD is a tool for high-performance computing clusters which downloads, stores and produces lists of dereplicated prokaryotic genomes. It has been developed to counter the ever-growing number of prokaryotic genomes and their uneven taxonomic distribution.
Raphaël R. Léonard, Marie Leleu, Mick Van Vlierberghe, Luc Cornet, Frédéric Kerff, Denis Baurain   +5 more
doaj   +2 more sources

cAMP and c-di-GMP synergistically support biofilm maintenance through the direct interaction of their effectors

Nature Communications, 2022
Nucleotide second messengers, such as cAMP and c-di-GMP, regulate many physiological processes in bacteria, including biofilm formation. Here, the authors provide evidence of cross-talk between cAMP and c-di-GMP pathways through direct interaction of ...
Cong Liu, Di Sun, Jiawen Liu, Ying Chen, Xuge Zhou, Yunrui Ru, Jingrong Zhu, Weijie Liu   +7 more
doaj   +1 more source

The complete mitochondrial genome of the two-spotted cricket Gryllus bimaculatus (Orthoptera: Gryllidae) from South Korea

Mitochondrial DNA. Part B. Resources, 2021
The complete mitochondrial genome of a two-spotted cricket Gryllus bimaculatus (Orthoptera: Gryllidae) from South Korea is determined and characterized in this study. The circular genome is 16,075 bp long, which consists of 13 protein-coding genes (PCGs),
Bia Park, Eun Hwa Choi, Gyeongmin Kim, Cho Rong Shin, Jihye Hwang, Su Youn Baek, Ui Wook Hwang   +6 more
doaj   +1 more source

Carbohydrate-binding modules targeting branched polysaccharides: overcoming side-chain recalcitrance in a non-catalytic approach

Bioresources and Bioprocessing, 2021
Extensive decoration of backbones is a major factor resulting in resistance of enzymatic conversion in hemicellulose and other branched polysaccharides. Employing debranching enzymes is the main strategy to overcome this kind of recalcitrance at present.
Jiawen Liu, Di Sun, Jingrong Zhu, Cong Liu, Weijie Liu   +4 more
doaj   +1 more source

One-step fermentation for producing xylo-oligosaccharides from wheat bran by recombinant Escherichia coli containing an alkaline xylanase

BMC Biotechnology, 2022
Background One-step fermentation is a cheap way to produce xylo-oligosaccharides (XOS), where production of xylanases and XOS is integrated into a single process. In spite of cost advantage, one-step fermentation is still short in yield so far due to the
Jiawen Liu, Cong Liu, Shilei Qiao, Zhen Dong, Di Sun, Jingrong Zhu, Weijie Liu   +6 more
doaj   +1 more source

Functional identification of two novel carbohydrate-binding modules of glucuronoxylanase CrXyl30 and their contribution to the lignocellulose saccharification

Biotechnology for Biofuels and Bioproducts, 2023
Background Glycoside hydrolase (GH) family 30 xylanases are a distinct group of xylanases, most of which have a highly specific catalytic activity for glucuronoxylan.
Jiawen Liu, Jingrong Zhu, Qian Xu, Rui Shi, Cong Liu, Di Sun, Weijie Liu   +6 more
doaj   +1 more source

The mitochondrial genome of a giant water bug Lethocerus deyrollei (Hemiptera: Belostomatidae) from South Korea

Mitochondrial DNA. Part B. Resources, 2021
A giant water bug Lethocerus deyrollei (Hemiptera: Belostomatidae) is a large, predatory, and nocturnal hemipteran insect, which has been considered threatened and thus enrolled as an endangered species in South Korea and Japan.
Eun Hwa Choi, Su Youn Baek, Ashraf Akintola, Bia Park, Jihye Hwang, Gyeongmin Kim, Cho Rong Shin, Ui Wook Hwang   +7 more
doaj   +1 more source

Liolophura species discrimination with geographical distribution patterns and their divergence and expansion history on the northwestern Pacific coast

Scientific Reports, 2021
The chiton Liolophura japonica (Lischke 1873) is distributed in intertidal areas of the northwestern Pacific. Using COI and 16S rRNA, we found three genetic lineages, suggesting separation into three different species.
Eun Hwa Choi, Mi Yeong Yeo, Gyeongmin Kim, Bia Park, Cho Rong Shin, Su Youn Baek, Ui Wook Hwang   +6 more
doaj   +1 more source

Dynamic changes in community structure and degradation performance of a bacterial consortium MMBC-1 during the subculturing revival reveal the potential decomposers of lignocellulose

Bioresources and Bioprocessing, 2022
Bacterial consortium is an important source of lignocellulolytic strains, but it is still a challenge to distinguish the direct decomposers of lignocellulose from other bacteria in such a complex community.
Jingrong Zhu, Jiawen Liu, Weilin Li, Yunrui Ru, Di Sun, Cong Liu, Zongyun Li, Weijie Liu   +7 more
doaj   +1 more source