Isopod holobionts as promising models for lignocellulose degradation

Lignocellulolytic systems of soil bacteria: A vast and diverse toolbox for biotechnological conversion processes

(2019) Rubén López-Mondéjar et al.   BIOTECHNOLOGY ADVANCES

Developmental symbiosis facilitates the multiple origins of herbivory

(2019) Scott F. Gilbert   EVOLUTION & DEVELOPMENT

Biofilm improves isopod growth independent of the dietary cellulose content

(2019) Terezia Horvathova et al.   PHYSIOLOGICAL AND BIOCHEMICAL ZOOLOGY

Lignocellulose degradation in isopods: new insights into the adaptation to terrestrial life

(2019) Marius Bredon et al.   BMC GENOMICS

Transcriptome analysis of the digestive system of a wood-feeding termite (Coptotermes formosanus) revealed a unique mechanism for effective biomass degradation

(2018) Alei Geng et al.   Biotechnology for Biofuels

dbCAN2: a meta server for automated carbohydrate-active enzyme annotation

(2018) Han Zhang et al.   NUCLEIC ACIDS RESEARCH

An ancient family of lytic polysaccharide monooxygenases with roles in arthropod development and biomass digestion

(2018) Federico Sabbadin et al.   Nature Communications

Feminizing Wolbachia influence microbiota composition in the terrestrial isopod Armadillidium vulgare

(2018) Jessica Dittmer et al.   Scientific Reports

The hologenome concept of evolution after 10 years

(2018) Eugene Rosenberg et al.   Microbiome

Microbiome composition within a sympatric species complex of intertidal isopods (Jaera albifrons)

(2018) Marius A. Wenzel et al.   PLoS One

Lignocellulose degradation at the holobiont level: teamwork in a keystone soil invertebrate

(2018) Marius Bredon et al.   Microbiome

Hemocyanin facilitates lignocellulose digestion by wood-boring marine crustaceans

(2018) Katrin Besser et al.   Nature Communications

Polysaccharide Utilization Loci: Fueling Microbial Communities

(2017) Julie M. Grondin et al.   JOURNAL OF BACTERIOLOGY

Plant feeding promotes diversification in the Crustacea

(2017) Alistair G. B. Poore et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Learning from microbial strategies for polysaccharide degradation

(2016) G. R. Hemsworth et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

It’s the song, not the singer: an exploration of holobiosis and evolutionary theory

(2016) W. Ford Doolittle et al.   BIOLOGY & PHILOSOPHY

MEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices

(2016) Dinghua Li et al.   METHODS

MEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data

(2016) Daniel H. Huson et al.   PLoS Computational Biology

The genome of the crustacean Parhyale hawaiensis, a model for animal development, regeneration, immunity and lignocellulose digestion

(2016) Damian Kao et al.   eLife

The Terrestrial Isopod Microbiome: An All-in-One Toolbox for Animal–Microbe Interactions of Ecological Relevance

(2016) Didier Bouchon et al.   Frontiers in Microbiology

Getting the Hologenome Concept Right: an Eco-Evolutionary Framework for Hosts and Their Microbiomes

(2016) Kevin R. Theis et al.   mSystems

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Lignocellulose degradation mechanisms across the Tree of Life

(2015) Simon M Cragg et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Crucial Roles of Single Residues in Binding Affinity, Specificity, and Promiscuity in the Cellulosomal Cohesin-Dockerin Interface

(2015) Michal Slutzki et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Pfam protein families database: towards a more sustainable future

(2015) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Automatic prediction of polysaccharide utilization loci in Bacteroidetes species

(2014) Nicolas Terrapon et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

The microbiome revolution

(2014) Martin J. Blaser   JOURNAL OF CLINICAL INVESTIGATION

Plant-Polysaccharide-Degrading Enzymes from Basidiomycetes

(2014) Johanna Rytioja et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

Symbiotic digestion of lignocellulose in termite guts

(2014) Andreas Brune   NATURE REVIEWS MICROBIOLOGY

Lignocellulose-degrading enzymes from termites and their symbiotic microbiota

(2013) Jinfeng Ni et al.   BIOTECHNOLOGY ADVANCES

Expansion of the enzymatic repertoire of the CAZy database to integrate auxiliary redox enzymes

(2013) Anthony Levasseur et al.   Biotechnology for Biofuels

Challenges in homology search: HMMER3 and convergent evolution of coiled-coil regions

(2013) Jaina Mistry et al.   NUCLEIC ACIDS RESEARCH

The carbohydrate-active enzymes database (CAZy) in 2013

(2013) Vincent Lombard et al.   NUCLEIC ACIDS RESEARCH

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

Structural characterization of a unique marine animal family 7 cellobiohydrolase suggests a mechanism of cellulase salt tolerance

(2013) M. Kern et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Animals in a bacterial world, a new imperative for the life sciences

(2013) Margaret McFall-Ngai et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

(2012) Evguenia Kopylova et al.   BIOINFORMATICS

Novel enzymes for the degradation of cellulose

(2012) Svein Horn et al.   Biotechnology for Biofuels

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

dbCAN: a web resource for automated carbohydrate-active enzyme annotation

(2012) Yanbin Yin et al.   NUCLEIC ACIDS RESEARCH

The Ecoresponsive Genome of Daphnia pulex

(2011) J. K. Colbourne et al.   SCIENCE

Microbial enzyme systems for biomass conversion: emerging paradigms

(2011) Michael E Himmel et al.   Biofuels-UK

Cellulosomes: Highly Efficient Nanomachines Designed to Deconstruct Plant Cell Wall Complex Carbohydrates

(2010) Carlos M.G.A. Fontes et al.   Annual Review of Biochemistry

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Analysis of cohesin-dockerin interactions using mutant dockerin proteins

(2010) Kazutaka Sakka et al.   FEMS MICROBIOLOGY LETTERS

Molecular insight into lignocellulose digestion by a marine isopod in the absence of gut microbes

(2010) A. J. King et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA