4.6 Article

Genome assembly and characterization of a complex zfBED-NLR gene-containing disease resistance locus in Carolina Gold Select rice with Nanopore sequencing

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Biotechnology & Applied Microbiology

Resistance gene cloning from a wild crop relative by sequence capture and association genetics

Sanu Arora et al.

NATURE BIOTECHNOLOGY (2019)

Article Biotechnology & Applied Microbiology

Assembly of long, error-prone reads using repeat graphs

Mikhail Kolmogorov et al.

NATURE BIOTECHNOLOGY (2019)

Article Genetics & Heredity

The complex architecture and epigenomic impact of plant T-DNA insertions

Florian Jupe et al.

PLOS GENETICS (2019)

Article Biochemistry & Molecular Biology

Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species

Paul Julian Kersey et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Biotechnology & Applied Microbiology

Nanopore sequencing and assembly of a human genome with ultra-long reads

Miten Jain et al.

NATURE BIOTECHNOLOGY (2018)

Review Genetics & Heredity

Piercing the dark matter: bioinformatics of long-range sequencing and mapping

Fritz J. Sedlazeck et al.

NATURE REVIEWS GENETICS (2018)

Article Multidisciplinary Sciences

High contiguity Arabidopsis thaliana genome assembly with a single nanopore flow cell

Todd P. Michael et al.

NATURE COMMUNICATIONS (2018)

Article Biochemical Research Methods

MUMmer4: A fast and versatile genome alignment system

Guillaume Marcais et al.

PLOS COMPUTATIONAL BIOLOGY (2018)

Article Plant Sciences

Bias in resistance gene prediction due to repeat masking

Philipp E. Bayer et al.

NATURE PLANTS (2018)

Review Biotechnology & Applied Microbiology

From squiggle to basepair: computational approaches for improving nanopore sequencing read accuracy

Franka J. Rang et al.

GENOME BIOLOGY (2018)

Article Biochemistry & Molecular Biology

CDD/SPARCLE: functional classification of proteins via subfamily domain architectures

Aron Marchler-Bauer et al.

NUCLEIC ACIDS RESEARCH (2017)

Article Biochemical Research Methods

Salmon provides fast and bias-aware quantification of transcript expression

Rob Patro et al.

NATURE METHODS (2017)

Article Biochemistry & Molecular Biology

De Novo Assembly of a New Solanum pennellii Accession Using Nanopore Sequencing

Maximilian H. -W. Schmidt et al.

PLANT CELL (2017)

Article Biochemical Research Methods

Targeted capture and sequencing of gene-sized DNA molecules

Michael Giolai et al.

BIOTECHNIQUES (2016)

Article Biotechnology & Applied Microbiology

Rapid cloning of disease-resistance genes in plants using mutagenesis and sequence capture

Burkhard Steuernage et al.

NATURE BIOTECHNOLOGY (2016)

Article Biotechnology & Applied Microbiology

Accelerated cloning of a potato late blight-resistance gene using RenSeq and SMRT sequencing

Kamil Witek et al.

NATURE BIOTECHNOLOGY (2016)

Article Genetics & Heredity

Domestication history and geographical adaptation inferred from a SNP map of African rice

Rachel S. Meyer et al.

NATURE GENETICS (2016)

Article Biochemistry & Molecular Biology

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees

Ivica Letunic et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Multidisciplinary Sciences

Interfering TAL effectors of Xanthomonas oryzae neutralize R-gene-mediated plant disease resistance

Zhiyuan Ji et al.

NATURE COMMUNICATIONS (2016)

Article Biochemical Research Methods

NLR-parser: rapid annotation of plant NLR complements

Burkhard Steuernagel et al.

BIOINFORMATICS (2015)

Article Biochemical Research Methods

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

Alexandros Stamatakis

BIOINFORMATICS (2014)

Article Plant Sciences

Defining the full tomato NB-LRR resistance gene repertoire using genomic and cDNA RenSeq

Giuseppe Andolfo et al.

BMC PLANT BIOLOGY (2014)

Article Biochemistry & Molecular Biology

The NB-LRR proteins RGA4 and RGA5 interact functionally and physically to confer disease resistance

Stella Cesari et al.

EMBO JOURNAL (2014)

Article Biochemistry & Molecular Biology

Presence-Absence Variation in A-thaliana Is Primarily Associated with Genomic Signatures Consistent with Relaxed Selective Constraints

Stephen J. Bush et al.

MOLECULAR BIOLOGY AND EVOLUTION (2014)

Article Multidisciplinary Sciences

Whole-genome sequencing of Oryza brachyantha reveals mechanisms underlying Oryza genome evolution

Jinfeng Chen et al.

NATURE COMMUNICATIONS (2013)

Review Immunology

Evolution and conservation of plant NLR functions

Florence Jacob et al.

FRONTIERS IN IMMUNOLOGY (2013)

Article Biotechnology & Applied Microbiology

Detection of copy number variations in rice using array-based comparative genomic hybridization

Ping Yu et al.

BMC GENOMICS (2011)

Review Plant Sciences

Innate immunity: has poplar made its BED?

Hugo Germain et al.

NEW PHYTOLOGIST (2011)

Article Biotechnology & Applied Microbiology

Genome-wide patterns of genetic variation in sweet and grain sorghum (Sorghum bicolor)

Lei-Ying Zheng et al.

GENOME BIOLOGY (2011)

Article Biochemical Research Methods

BEDTools: a flexible suite of utilities for comparing genomic features

Aaron R. Quinlan et al.

BIOINFORMATICS (2010)

Review Plant Sciences

TAL effectors: finding plant genes for disease and defense

Adam J. Bogdanove et al.

CURRENT OPINION IN PLANT BIOLOGY (2010)

Article Biochemistry & Molecular Biology

Unique evolutionary pattern of numbers of gramineous NBS-LRR genes

Jing Li et al.

MOLECULAR GENETICS AND GENOMICS (2010)

Article Biochemical Research Methods

Fast and accurate short read alignment with Burrows-Wheeler transform

Heng Li et al.

BIOINFORMATICS (2009)

Article Agronomy

Identification and fine mapping of the new bacterial blight resistance gene, Xa31(t), in rice

Chuntai Wang et al.

EUROPEAN JOURNAL OF PLANT PATHOLOGY (2009)

Article Biochemistry & Molecular Biology

Sequencing of natural strains of Arabidopsis thaliana with short reads

Stephan Ossowski et al.

GENOME RESEARCH (2008)

Article Plant Sciences

Structure-function analysis of the NB-ARC domain of plant disease resistance proteins

Gerben Van Ooijen et al.

JOURNAL OF EXPERIMENTAL BOTANY (2008)

Article Multidisciplinary Sciences

Common sequence polymorphisms shaping genetic diversity in Arabidopsis thaliana

Richard M. Clark et al.

SCIENCE (2007)

Article Agronomy

Fine mapping of Xa2, a bacterial blight resistance gene in rice

Q He et al.

MOLECULAR BREEDING (2006)

Article Multidisciplinary Sciences

An Arabidopsis hAT-like transposase is essential for plant development

P Bundock et al.

NATURE (2005)

Article Biochemical Research Methods

GMAP: a genomic mapping and alignment program for mRNA and EST sequences

TD Wu et al.

BIOINFORMATICS (2005)

Article Biochemistry & Molecular Biology

WebLogo: A sequence logo generator

GE Crooks et al.

GENOME RESEARCH (2004)

Article Biochemistry & Molecular Biology

Genome-wide identification of NBS genes in japonica rice reveals significant expansion of divergent non-TIR NBS-LRR genes

T Zhou et al.

MOLECULAR GENETICS AND GENOMICS (2004)

Review Biochemistry & Molecular Biology

Genome-wide analysis of NBS-LRR-encoding genes in Arabidopsis

BC Meyers et al.

PLANT CELL (2003)

Article Biochemistry & Molecular Biology

BLAT - The BLAST-like alignment tool

WJ Kent

GENOME RESEARCH (2002)

Article Biochemistry & Molecular Biology

The BED finger, a novel DNA-binding domain in chromatin-boundary-element-binding proteins and transposases

L Aravind

TRENDS IN BIOCHEMICAL SCIENCES (2000)