Comparative Genomics of the Rhodococcus Genus Shows Wide Distribution of Biodegradation Traits

Analysis of the biodegradative and adaptive potential of the novel polychlorinated biphenyl degrader Rhodococcus sp. WAY2 revealed by its complete genome sequence

(2020) Daniel Garrido-Sanz et al.   Microbial Genomics

Rhodococcus subtropicus sp. nov., a new actinobacterium isolated from a cave

(2019) Soon Dong Lee et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

(2018) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Metagenomic Analysis of a Biphenyl-Degrading Soil Bacterial Consortium Reveals the Metabolic Roles of Specific Populations

(2018) Daniel Garrido-Sanz et al.   Frontiers in Microbiology

Rhodococcus daqingensis sp. nov., isolated from petroleum-contaminated soil

(2018) Lili Wang et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Pangenome and Phylogenomic Analysis of the Pathogenic ActinobacteriumRhodococcus equi

(2016) Elisa Anastasi et al.   Genome Biology and Evolution

iNEXT: an R package for rarefaction and extrapolation of species diversity (Hill numbers)

(2016) T. C. Hsieh et al.   Methods in Ecology and Evolution

Genomic and Genetic Diversity within the Pseudomonas fluorescens Complex

(2016) Daniel Garrido-Sanz et al.   PLoS One

Comparative Genomics Reveals the Core and Accessory Genomes of Streptomyces Species

(2015) Ji-Nu Kim et al.   JOURNAL OF MICROBIOLOGY AND BIOTECHNOLOGY

GC-Content of Synonymous Codons Profoundly Influences Amino Acid Usage

(2015) Jing Li et al.   G3-Genes Genomes Genetics

Genome and Phenotype Microarray Analyses of Rhodococcus sp. BCP1 and Rhodococcus opacus R7: Genetic Determinants and Metabolic Abilities with Environmental Relevance

(2015) Alessandro Orro et al.   PLoS One

Complete genome sequence of DSM 30083T, the type strain (U5/41T) of Escherichia coli, and a proposal for delineating subspecies in microbial taxonomy

(2015) Jan P Meier-Kolthoff et al.   Standards in Genomic Sciences

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

A note on the genus name Rhodococcus Zopf 1891 and its homonyms

(2014) B. J. Tindall   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

The correct name of the taxon that contains the type strain of Rhodococcus equi

(2014) B. J. Tindall   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

Use of whole genome sequences to develop a molecular phylogenetic framework for Rhodococcus fascians and the Rhodococcus genus

(2014) Allison L. Creason et al.   Frontiers in Plant Science

Proposal to replace the illegitimate genus name Prescottia Jones et al. 2013 with the genus name Prescottella gen. nov. and to replace the illegitimate combination Prescottia equi Jones et al. 2013 with Prescottella equi comb. nov

(2013) Amanda L. Jones et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Genome sequence-based species delimitation with confidence intervals and improved distance functions

(2013) Jan P Meier-Kolthoff et al.   BMC BIOINFORMATICS

Rhodococcus defluvii sp. nov., isolated from wastewater of a bioreactor and formal proposal to reclassify [Corynebacterium hoagii] and Rhodococcus equi as Rhodococcus hoagii comb. nov.

(2013) P. Kampfer et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

LPSN—list of prokaryotic names with standing in nomenclature

(2013) Aidan C. Parte   NUCLEIC ACIDS RESEARCH

Structural insights into diversity and n-alkane biodegradation mechanisms of alkane hydroxylases

(2013) Yurui Ji et al.   Frontiers in Microbiology

Comparison of the Specificities and Efficacies of Primers for Aromatic Dioxygenase Gene Analysis of Environmental Samples

(2011) Shoko Iwai et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Rhodococcus equi: Clinical Manifestations, Virulence, and Immunity

(2011) S. Giguère et al.   JOURNAL OF VETERINARY INTERNAL MEDICINE

Isolation, characterization of Rhodococcus sp. P14 capable of degrading high-molecular-weight polycyclic aromatic hydrocarbons and aliphatic hydrocarbons

(2011) Xiaohui Song et al.   MARINE POLLUTION BULLETIN

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

Identification and characterization of genes involved in naphthalene degradation in Rhodococcus opacus R7

(2010) Patrizia Di Gennaro et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Distributions of putative aerobic methanotrophs in diverse pelagic marine environments

(2010) Patricia L Tavormina et al.   ISME Journal

How Many Bootstrap Replicates Are Necessary?

(2010) Nicholas D. Pattengale et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Gene-targeted-metagenomics reveals extensive diversity of aromatic dioxygenase genes in the environment

(2009) Shoko Iwai et al.   ISME Journal

Molecular Taxonomy of Phytopathogenic Fungi: A Case Study in Peronospora

(2009) Markus Göker et al.   PLoS One

Shifting the genomic gold standard for the prokaryotic species definition

(2009) Michael Richter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An Improved General Amino Acid Replacement Matrix

(2008) S. Q. Le et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Rapid Bootstrap Algorithm for the RAxML Web Servers

(2008) Alexandros Stamatakis et al.   SYSTEMATIC BIOLOGY

Crystal Structure of Long-Chain Alkane Monooxygenase (LadA) in Complex with Coenzyme FMN: Unveiling the Long-Chain Alkane Hydroxylase

(2007) Liu Li et al.   JOURNAL OF MOLECULAR BIOLOGY