Rye B chromosomes differently influence the expression of A chromosome–encoded genes depending on the host species

Effect of aneuploidy of a nonessential chromosome on gene expression in maize

(2022) Xiaowen Shi et al.   PLANT JOURNAL

Identification of rye B chromosome‐associated peptides by mass spectrometry

(2021) Wei Ma et al.   NEW PHYTOLOGIST

AtNUF2 modulates spindle microtubule organization and chromosome segregation during mitosis

(2021) Jin Li et al.   PLANT JOURNAL

Sequence of the supernumerary B chromosome of maize provides insight into its drive mechanism and evolution

(2021) Nicolas Blavet et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Supernumerary B chromosomes of Aegilops speltoides undergo precise elimination in roots early in embryo development

(2020) Alevtina Ruban et al.   Nature Communications

Genome-wide impacts of alien chromatin introgression on wheat gene transcriptions

(2020) Zhenjie Dong et al.   Scientific Reports

Tissue-Specific Transcriptome Analysis Reveals Candidate Transcripts Associated with the Process of Programmed B Chromosome Elimination in Aegilops speltoides

(2020) Anastassia Boudichevskaia et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

g:Profiler: a web server for functional enrichment analysis and conversions of gene lists (2019 update)

(2019) Uku Raudvere et al.   NUCLEIC ACIDS RESEARCH

Transcriptome reprogramming due to the introduction of a barley telosome into bread wheat affects more barley genes than wheat

(2018) Elodie Rey et al.   PLANT BIOTECHNOLOGY JOURNAL

agriGO v2.0: a GO analysis toolkit for the agricultural community, 2017 update

(2017) Tian Tian et al.   NUCLEIC ACIDS RESEARCH

Rye (Secale cereale) supernumerary (B) chromosomes associated with heat tolerance during early stages of male sporogenesis

(2016) H. Sofia Pereira et al.   ANNALS OF BOTANY

B chromosome contains active genes and impacts the transcription of A chromosomes in maize (Zea mays L.)

(2016) Wei Huang et al.   BMC PLANT BIOLOGY

TransRate: reference-free quality assessment of de novo transcriptome assemblies

(2016) Richard Smith-Unna et al.   GENOME RESEARCH

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

Rye B chromosomes encode a functional Argonaute-like protein within vitroslicer activities similar to its A chromosome paralog

(2016) Wei Ma et al.   NEW PHYTOLOGIST

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Origin and Evolution of B Chromosomes in the Cichlid Fish Astatotilapia latifasciata Based on Integrated Genomic Analyses

(2014) Guilherme T. Valente et al.   MOLECULAR BIOLOGY AND EVOLUTION

B chromosomes of rye are highly conserved and accompanied the development of early agriculture

(2013) A. Marques et al.   ANNALS OF BOTANY

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

High-copy sequences reveal distinct evolution of the rye B chromosome

(2013) Sonja Klemme et al.   NEW PHYTOLOGIST

Formation and Expression of Pseudogenes on the B Chromosome of Rye

(2013) A. M. Banaei-Moghaddam et al.   PLANT CELL

Barley whole exome capture: a tool for genomic research in the genusHordeumand beyond

(2013) Martin Mascher et al.   PLANT JOURNAL

BEDOPS: high-performance genomic feature operations

(2012) Shane Neph et al.   BIOINFORMATICS

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

Selfish supernumerary chromosome reveals its origin as a mosaic of host genome and organellar sequences

(2012) M. M. Martis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R

(2011) Hanbo Chen et al.   BMC BIOINFORMATICS

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

Chromatin structure and the inheritance of epigenetic information

(2010) Raphaël Margueron et al.   NATURE REVIEWS GENETICS

Rye B chromosomes are weakly transcribed and might alter the transcriptional activity of A chromosome sequences

(2009) Mariana Carchilan et al.   CHROMOSOMA

TRANSFER TO WHEAT OF ACCESSORY CHROMOSOMES FROM RYE

(2009) JÖRGEN LINDSTRÖM   HEREDITAS

EFFECTS OF ACCESSORY CHROMOSOMES IN DIPLOID AND TETRAPLOID RYE

(2009) ARNE MÜNTZING   HEREDITAS

Dissection of rye B chromosomes, and nondisjunction properties of the dissected segments in a common wheat background

(2008) Takashi Ryu Endo et al.   GENES & GENETIC SYSTEMS