Phylogenetic Analyses of Glycosyl Hydrolase Family 6 Genes in Tunicates: Possible Horizontal Transfer

Massive Changes of Genome Size Driven by Expansions of Non-autonomous Transposable Elements

(2019) Magali Naville et al.   CURRENT BIOLOGY

Horizontal gene transfer as an indispensable driver for Neocallimastigomycota evolution into a distinct gut-dwelling fungal lineage

(2019) Chelsea L. Murphy et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

ORTHOSCOPE Analysis Reveals the Presence of the Cellulose Synthase Gene in All Tunicate Genomes but Not in Other Animal Genomes

(2019) Inoue et al.   Genes

A Nearly Complete Genome of Ciona intestinalis Type A (C. robusta) Reveals the Contribution of Inversion to Chromosomal Evolution in the Genus Ciona

(2019) Yutaka Satou et al.   Genome Biology and Evolution

A phylogenomic framework and timescale for comparative studies of tunicates

(2018) Frédéric Delsuc et al.   BMC BIOLOGY

Identification and expression analysis of long noncoding RNAs in embryogenesis and larval metamorphosis of Ciona savignyi

(2018) Jiankai Wei et al.   Marine Genomics

HMMER web server: 2018 update

(2018) Simon C Potter et al.   NUCLEIC ACIDS RESEARCH

Functional horizontal gene transfer from bacteria to eukaryotes

(2017) Filip Husnik et al.   NATURE REVIEWS MICROBIOLOGY

A mechanism for a single nucleotide intron shift

(2017) Erzsébet Fekete et al.   NUCLEIC ACIDS RESEARCH

Origin and evolutionary implications of introns from analysis of cellulose synthase gene

(2017) Punit Bhattachan et al.   Journal of Systematics and Evolution

Rapid Evolutionary Rates and Unique Genomic Signatures Discovered in the First Reference Genome for the Southern Ocean Salp,Salpa thompsoni(Urochordata, Thaliacea)

(2016) Nathaniel K. Jue et al.   Genome Biology and Evolution

Transcriptomic profiles of spring and summer populations of the Southern Ocean salp, Salpa thompsoni, in the Western Antarctic Peninsula region

(2016) Batta-Lona PG et al.   POLAR BIOLOGY

Transcriptional regulation of a horizontally transferred gene from bacterium to chordate

(2016) Yasunori Sasakura et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Horizontal gene transfer: building the web of life

(2015) Shannon M. Soucy et al.   NATURE REVIEWS GENETICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

CRISPR/Cas9-mediated gene knockout in the ascidianCiona intestinalis

(2014) Haruka Sasaki et al.   DEVELOPMENT GROWTH & DIFFERENTIATION

The Cellulase KORRIGAN Is Part of the Cellulose Synthase Complex

(2014) T. Vain et al.   PLANT PHYSIOLOGY

Horizontal gene transfer in the acquisition of novel traits by metazoans

(2014) Luis Boto   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Genome-wide survey and expression analysis of the bHLH-PAS genes in the amphioxus Branchiostoma floridae reveal both conserved and diverged expression patterns between cephalochordates and vertebrates

(2014) Kun-Lung Li et al.   EvoDevo

Tissue-specific and ubiquitous gene knockouts by TALEN electroporation provide new approaches to investigating gene function in Ciona

(2013) N. Treen et al.   DEVELOPMENT

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

The genome sequence of the colonial chordate, Botryllus schlosseri

(2013) Ayelet Voskoboynik et al.   eLife

Gene structure in the sea urchin Strongylocentrotus purpuratus based on transcriptome analysis

(2012) Q. Tu et al.   GENOME RESEARCH

OikoBase: a genomics and developmental transcriptomics resource for the urochordate Oikopleura dioica

(2012) Gemma Danks et al.   NUCLEIC ACIDS RESEARCH

New and continuing developments at PROSITE

(2012) Christian J. A. Sigrist et al.   NUCLEIC ACIDS RESEARCH

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

ProtTest 3: fast selection of best-fit models of protein evolution

(2011) Diego Darriba et al.   BIOINFORMATICS

Horizontal gene transfer between bacteria and animals

(2011) Julie C. Dunning Hotopp   TRENDS IN GENETICS

The crystalline phase of cellulose changes under developmental control in a marine chordate

(2010) Keisuke Nakashima et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Functional specialization of cellulose synthase genes of prokaryotic origin in chordate larvaceans

(2010) Y. Sagane et al.   DEVELOPMENT

The ANISEED database: Digital representation, formalization, and elucidation of a chordate developmental program

(2010) O. Tassy et al.   GENOME RESEARCH

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

Splign: algorithms for computing spliced alignments with identification of paralogs

(2008) Yuri Kapustin et al.   Biology Direct

Additional molecular support for the new chordate phylogeny

(2008) Frédéric Delsuc et al.   GENESIS

The amphioxus genome and the evolution of the chordate karyotype

(2008) Nicholas H. Putnam et al.   NATURE

Improved genome assembly and evidence-based global gene model set for the chordate Ciona intestinalis: new insight into intron and operon populations

(2008) Yutaka Satou et al.   GENOME BIOLOGY