Combining de novo and reference-guided assembly with scaffold_builder
Genome sequencing has become routine, however genome assembly still remains a
challenge despite the computational advances in the last decade. In particular, the …
challenge despite the computational advances in the last decade. In particular, the …
MeDuSa: a multi-draft based scaffolder
Motivation: Completing the genome sequence of an organism is an important task in
comparative, functional and structural genomics. However, this remains a challenging issue …
comparative, functional and structural genomics. However, this remains a challenging issue …
Diversity and evolution of secondary metabolism in the marine actinomycete genus Salinispora
Access to genome sequence data has challenged traditional natural product discovery
paradigms by revealing that the products of most bacterial biosynthetic pathways have yet to …
paradigms by revealing that the products of most bacterial biosynthetic pathways have yet to …
PirVP genes causing AHPND identified in a new Vibrio species (Vibrio punensis) within the commensal Orientalis clade
L Restrepo, B Bayot, S Arciniegas, L Bajaña… - Scientific reports, 2018 - nature.com
Acute hepatopancreatic necrosis disease (AHPND) has extended rapidly, causing alarming
shrimp mortalities. Initially, the only known causative agent was Vibrio parahaemolyticus …
shrimp mortalities. Initially, the only known causative agent was Vibrio parahaemolyticus …
Genome mining identifies cepacin as a plant-protective metabolite of the biopesticidal bacterium Burkholderia ambifaria
Beneficial microorganisms are widely used in agriculture for control of plant pathogens, but
a lack of efficacy and safety information has limited the exploitation of multiple promising …
a lack of efficacy and safety information has limited the exploitation of multiple promising …
Comparative genomics reveals phylogenetic distribution patterns of secondary metabolites in Amycolatopsis species
Background Genome mining tools have enabled us to predict biosynthetic gene clusters that
might encode compounds with valuable functions for industrial and medical applications …
might encode compounds with valuable functions for industrial and medical applications …
A post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs
Genome projects now produce draft assemblies within weeks owing to advanced high-
throughput sequencing technologies. For milestone projects such as Escherichia coli or …
throughput sequencing technologies. For milestone projects such as Escherichia coli or …
Genome-Guided Insights into the Plant Growth Promotion Capabilities of the Physiologically Versatile Bacillus aryabhattai Strain AB211
C Bhattacharyya, U Bakshi, I Mallick… - Frontiers in …, 2017 - frontiersin.org
Bacillus aryabhattai AB211 is a plant growth promoting, Gram-positive firmicute, isolated
from the rhizosphere of tea (Camellia sinensis), one of the oldest perennial crops and a …
from the rhizosphere of tea (Camellia sinensis), one of the oldest perennial crops and a …
A comparative and functional genomics analysis of the genus Romboutsia provides insight into adaptation to an intestinal lifestyle
J Gerritsen, B Hornung, J Ritari, L Paulin, GT Rijkers… - BioRxiv, 2019 - biorxiv.org
Cultivation-independent surveys have shown that the recently described genus Romboutsia
within the family Peptostreptococcaceae is more diverse than previously acknowledged. The …
within the family Peptostreptococcaceae is more diverse than previously acknowledged. The …
Genomic Insights Into the Antifungal Activity and Plant Growth-Promoting Ability in Bacillus velezensis CMRP 4490
GM Teixeira, M Mosela, MLA Nicoletto… - Frontiers in …, 2021 - frontiersin.org
The main objective of this study was to evaluate Bacillus velezensis strain CMRP 4490
regarding its ability to inhibit soil-borne plant pathogens and to increase plant growth. The …
regarding its ability to inhibit soil-borne plant pathogens and to increase plant growth. The …