Method for the Identification of Taxon-Specific k-mers from Chloroplast Genome: A Case Study on Tomato Plant (Solanum lycopersicum)
出版年份 2018 全文链接
标题
Method for the Identification of Taxon-Specific k-mers from Chloroplast Genome: A Case Study on Tomato Plant (Solanum lycopersicum)
作者
关键词
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出版物
Frontiers in Plant Science
Volume 9, Issue -, Pages -
出版商
Frontiers Media SA
发表日期
2018-01-17
DOI
10.3389/fpls.2018.00006
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注意:仅列出部分参考文献,下载原文获取全部文献信息。- FastGT: an alignment-free method for calling common SNVs directly from raw sequencing reads
- (2017) Fanny-Dhelia Pajuste et al. Scientific Reports
- StrainSeeker: fast identification of bacterial strains from raw sequencing reads using user-provided guide trees
- (2017) Märt Roosaare et al. PeerJ
- Advances in DNA metabarcoding for food and wildlife forensic species identification
- (2016) Martijn Staats et al. ANALYTICAL AND BIOANALYTICAL CHEMISTRY
- Centrifuge: rapid and sensitive classification of metagenomic sequences
- (2016) Daehwan Kim et al. GENOME RESEARCH
- Fast and sensitive taxonomic classification for metagenomics with Kaiju
- (2016) Peter Menzel et al. Nature Communications
- Complete chloroplast genome sequence of Solanum nigrum and development of markers for the discrimination of S. nigrum
- (2016) Kwang-Soo Cho et al. Horticulture Environment and Biotechnology
- A Nucleotide Signature for the Identification of Angelicae Sinensis Radix (Danggui) and Its Products
- (2016) Xiaoyue Wang et al. Scientific Reports
- CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers
- (2015) Rachid Ounit et al. BMC GENOMICS
- Does complete plastid genome sequencing improve species discrimination and phylogenetic resolution in Araucaria ?
- (2015) Markus Ruhsam et al. Molecular Ecology Resources
- GenBank
- (2015) Karen Clark et al. NUCLEIC ACIDS RESEARCH
- DNA barcoding: an efficient tool to overcome authentication challenges in the herbal market
- (2015) Priyanka Mishra et al. PLANT BIOTECHNOLOGY JOURNAL
- Towards a Universal Approach Based on Omics Technologies for the Quality Control of Food
- (2015) Emanuele Ferri et al. Biomed Research International
- GenomeTester4: a toolkit for performing basic set operations - union, intersection and complement on k-mer lists
- (2015) Lauris Kaplinski et al. GigaScience
- Comprehensive Survey of Genetic Diversity in Chloroplast Genomes and 45S nrDNAs within Panax ginseng Species
- (2015) Kyunghee Kim et al. PLoS One
- Can DNA-Based Ecosystem Assessments Quantify Species Abundance? Testing Primer Bias and Biomass—Sequence Relationships with an Innovative Metabarcoding Protocol
- (2015) Vasco Elbrecht et al. PLoS One
- A DNA Mini-Barcoding System for Authentication of Processed Fish Products
- (2015) Shadi Shokralla et al. Scientific Reports
- andi: Fast and accurate estimation of evolutionary distances between closely related genomes
- (2014) Bernhard Haubold et al. BIOINFORMATICS
- A chloroplast genomic strategy for designing taxon specific DNA mini-barcodes: a case study on ginsengs
- (2014) Wenpan Dong et al. BMC GENETICS
- All-Food-Seq (AFS): a quantifiable screen for species in biological samples by deep DNA sequencing
- (2014) Fabian Ripp et al. BMC GENOMICS
- Forensic DNA analysis for animal protection and biodiversity conservation: A review
- (2014) Arati Iyengar JOURNAL FOR NATURE CONSERVATION
- Universal and blocking primer mismatches limit the use of high-throughput DNA sequencing for the quantitative metabarcoding of arthropods
- (2014) J. Piñol et al. Molecular Ecology Resources
- Sailfish enables alignment-free isoform quantification from RNA-seq reads using lightweight algorithms
- (2014) Rob Patro et al. NATURE BIOTECHNOLOGY
- Kraken: ultrafast metagenomic sequence classification using exact alignments
- (2014) Derrick E Wood et al. GENOME BIOLOGY
- Complete chloroplast genome of the genus Cymbidium: lights into the species identification, phylogenetic implications and population genetic analyses
- (2013) Jun-Bo Yang et al. BMC EVOLUTIONARY BIOLOGY
- DNA barcoding detects contamination and substitution in North American herbal products
- (2013) Steven G Newmaster et al. BMC Medicine
- MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0
- (2013) Koichiro Tamura et al. MOLECULAR BIOLOGY AND EVOLUTION
- The Norway spruce genome sequence and conifer genome evolution
- (2013) Björn Nystedt et al. NATURE
- A Universal Method for Species Identification of Mammals Utilizing Next Generation Sequencing for the Analysis of DNA Mixtures
- (2013) Andreas O. Tillmar et al. PLoS One
- Predicting Plastid Marker Variation: Can Complete Plastid Genomes from Closely Related Species Help?
- (2013) Tiina Särkinen et al. PLoS One
- The First 50 Plant Genomes
- (2013) Todd P. Michael et al. Plant Genome
- Ultra-deep sequencing enables high-fidelity recovery of biodiversity for bulk arthropod samples without PCR amplification
- (2013) Xin Zhou et al. GigaScience
- Ultra-barcoding in cacao (Theobroma spp.; Malvaceae) using whole chloroplast genomes and nuclear ribosomal DNA
- (2012) Nolan Kane et al. AMERICAN JOURNAL OF BOTANY
- Barcoding success as a function of phylogenetic relatedness in Viburnum, a clade of woody angiosperms
- (2012) Wendy L Clement et al. BMC EVOLUTIONARY BIOLOGY
- DNA barcoding as a new tool for food traceability
- (2012) Andrea Galimberti et al. FOOD RESEARCH INTERNATIONAL
- Comparison of Next-Generation Sequencing Systems
- (2012) Lin Liu et al. JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY
- Rapid Plant Identification Using Species- and Group-Specific Primers Targeting Chloroplast DNA
- (2012) Corinna Wallinger et al. PLoS One
- Highly Variable Chloroplast Markers for Evaluating Plant Phylogeny at Low Taxonomic Levels and for DNA Barcoding
- (2012) Wenpan Dong et al. PLoS One
- Deep Sequencing of Plant and Animal DNA Contained within Traditional Chinese Medicines Reveals Legality Issues and Health Safety Concerns
- (2012) Megan L. Coghlan et al. PLoS Genetics
- Genome-wide analysis of plastome sequence variation and development of plastidial CAPS markers in common potato and related Solanum species
- (2011) Daniela Gargano et al. GENETIC RESOURCES AND CROP EVOLUTION
- Testing DNA barcoding in closely related groups of Lysimachia L. (Myrsinaceae)
- (2011) CAI-YUN ZHANG et al. Molecular Ecology Resources
- Sequence-specific error profile of Illumina sequencers
- (2011) Kensuke Nakamura et al. NUCLEIC ACIDS RESEARCH
- High-Throughput Sequencing of Six Bamboo Chloroplast Genomes: Phylogenetic Implications for Temperate Woody Bamboos (Poaceae: Bambusoideae)
- (2011) Yun-Jie Zhang et al. PLoS One
- Choosing and Using a Plant DNA Barcode
- (2011) Peter M. Hollingsworth et al. PLoS One
- An In silico approach for the evaluation of DNA barcodes
- (2010) Gentile Ficetola et al. BMC GENOMICS
- Finding a (pine) needle in a haystack: chloroplast genome sequence divergence in rare and widespread pines
- (2010) J. B. WHITTALL et al. MOLECULAR ECOLOGY
- The Sequence Read Archive
- (2010) R. Leinonen et al. NUCLEIC ACIDS RESEARCH
- Chloroplast genome sequences from total DNA for plant identification
- (2010) Catherine J. Nock et al. PLANT BIOTECHNOLOGY JOURNAL
- Increasing phylogenetic resolution at low taxonomic levels using massively parallel sequencing of chloroplast genomes
- (2009) Matthew Parks et al. BMC BIOLOGY
- A DNA barcode for land plants
- (2009) et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- The 1001 Genomes Project for Arabidopsis thaliana
- (2009) Detlef Weigel et al. GENOME BIOLOGY
- GenomeVx: simple web-based creation of editable circular chromosome maps
- (2008) G. C. Conant et al. BIOINFORMATICS
- Relative rates of synonymous substitutions in the mitochondrial, chloroplast and nuclear genomes of seed plants
- (2008) G DROUIN et al. MOLECULAR PHYLOGENETICS AND EVOLUTION
- Multiple Multilocus DNA Barcodes from the Plastid Genome Discriminate Plant Species Equally Well
- (2008) Aron J. Fazekas et al. PLoS One
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