Cargando…

De novo assembly and characterization of the carrot transcriptome reveals novel genes, new markers, and genetic diversity

BACKGROUND: Among next generation sequence technologies, platforms such as Illumina and SOLiD produce short reads but with higher coverage and lower cost per sequenced nucleotide than 454 or Sanger. A challenge now is to develop efficient strategies to use short-read length platforms for de novo ass...

Descripción completa

Detalles Bibliográficos
Autores principales:	Iorizzo, Massimo, Senalik, Douglas A, Grzebelus, Dariusz, Bowman, Megan, Cavagnaro, Pablo F, Matvienko, Marta, Ashrafi, Hamid, Van Deynze, Allen, Simon, Philipp W
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2011
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3224100/ https://www.ncbi.nlm.nih.gov/pubmed/21810238 http://dx.doi.org/10.1186/1471-2164-12-389

Ejemplares similares

De novo assembly of the carrot mitochondrial genome using next generation sequencing of whole genomic DNA provides first evidence of DNA transfer into an angiosperm plastid genome
por: Iorizzo, Massimo, et al.
Publicado: (2012)

Diversity, genetic mapping, and signatures of domestication in the carrot (Daucus carota L.) genome, as revealed by Diversity Arrays Technology (DArT) markers
por: Grzebelus, Dariusz, et al.
Publicado: (2013)

Characterization of a Genomic Region under Selection in Cultivated Carrot (Daucus carota subsp. sativus) Reveals a Candidate Domestication Gene
por: Macko-Podgórni, Alicja, et al.
Publicado: (2017)

Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots
por: Coe, Kevin, et al.
Publicado: (2023)

Comparative Transcriptomics of Root Development in Wild and Cultivated Carrots
por: Machaj, Gabriela, et al.
Publicado: (2018)

Identification of an SCPL Gene Controlling Anthocyanin Acylation in Carrot (Daucus carota L.) Root
por: Curaba, Julien, et al.
Publicado: (2020)

Genetic and Transcription Profile Analysis of Tissue-Specific Anthocyanin Pigmentation in Carrot Root Phloem
por: Bannoud, Florencia, et al.
Publicado: (2021)

Fine Mapping, Transcriptome Analysis, and Marker Development for Y(2), the Gene That Conditions β-Carotene Accumulation in Carrot (Daucus carota L.)
por: Ellison, Shelby, et al.
Publicado: (2017)

A gene-derived SNP-based high resolution linkage map of carrot including the location of QTL conditioning root and leaf anthocyanin pigmentation
por: Cavagnaro, Pablo F, et al.
Publicado: (2014)

Microsatellite isolation and marker development in carrot - genomic distribution, linkage mapping, genetic diversity analysis and marker transferability across Apiaceae
por: Cavagnaro, Pablo F, et al.
Publicado: (2011)

Against the traffic: The first evidence for mitochondrial DNA transfer into the plastid genome
por: Iorizzo, Massimo, et al.
Publicado: (2012)

Mining for Candidate Genes Controlling Secondary Growth of the Carrot Storage Root
por: Macko-Podgórni, Alicja, et al.
Publicado: (2020)

Carrot Anthocyanins Genetics and Genomics: Status and Perspectives to Improve Its Application for the Food Colorant Industry
por: Iorizzo, Massimo, et al.
Publicado: (2020)

A Cluster of MYB Transcription Factors Regulates Anthocyanin Biosynthesis in Carrot (Daucus carota L.) Root and Petiole
por: Iorizzo, Massimo, et al.
Publicado: (2019)

DcSto: carrot Stowaway-like elements are abundant, diverse, and polymorphic
por: Macko-Podgorni, Alicja, et al.
Publicado: (2013)

De novo assembly of the pepper transcriptome (Capsicum annuum): a benchmark for in silico discovery of SNPs, SSRs and candidate genes
por: Ashrafi, Hamid, et al.
Publicado: (2012)

Using carrot centromeric repeats to study karyotype relationships in the genus Daucus (Apiaceae)
por: Kadluczka, Dariusz, et al.
Publicado: (2021)

Genetic diversity structure of western-type carrots
por: Stelmach, Katarzyna, et al.
Publicado: (2021)

A Global Landscape of Miniature Inverted-Repeat Transposable Elements in the Carrot Genome
por: Macko-Podgórni, Alicja, et al.
Publicado: (2021)

Characterization of Purple Carrot Germplasm for Antioxidant Capacity and Root Concentration of Anthocyanins, Phenolics, and Carotenoids
por: Pérez, María Belén, et al.
Publicado: (2023)

Characteristics of the AT-Hook Motif Containing Nuclear Localized (AHL) Genes in Carrot Provides Insight into Their Role in Plant Growth and Storage Root Development
por: Machaj, Gabriela, et al.
Publicado: (2021)

Miniature Inverted Repeat Transposable Element Insertions Provide a Source of Intron Length Polymorphism Markers in the Carrot (Daucus carota L.)
por: Stelmach, Katarzyna, et al.
Publicado: (2017)

Diversity and function of terpene synthases in the production of carrot aroma and flavor compounds
por: Muchlinski, Andrew, et al.
Publicado: (2020)

Effect of β-lactam antibiotics on plant regeneration in carrot protoplast cultures
por: Grzebelus, Ewa, et al.
Publicado: (2014)

Patterns of Gene Flow between Crop and Wild Carrot, Daucus carota (Apiaceae) in the United States
por: Mandel, Jennifer R., et al.
Publicado: (2016)

Stowaway miniature inverted repeat transposable elements are important agents driving recent genomic diversity in wild and cultivated carrot
por: Macko-Podgórni, Alicja, et al.
Publicado: (2019)

Publisher Correction: Diversity and function of terpene synthases in the production of carrot aroma and flavor compounds
por: Muchlinski, Andrew, et al.
Publicado: (2020)

CarrotDB: a genomic and transcriptomic database for carrot
por: Xu, Zhi-Sheng, et al.
Publicado: (2014)

An Automated Image Analysis Pipeline Enables Genetic Studies of Shoot and Root Morphology in Carrot (Daucus carota L.)
por: Turner, Sarah D., et al.
Publicado: (2018)

Mapping genes governing flower architecture and pollen development in a double mutant population of carrot
por: Budahn, Holger, et al.
Publicado: (2014)

Sequencing and De Novo Assembly of the Complete Chloroplast Genome of the Peruvian Carrot (Arracacia xanthorrhiza Bancroft)
por: Alvarado, Javier Santiago, et al.
Publicado: (2017)

Diverse and mobile: eccDNA‐based identification of carrot low‐copy‐number LTR retrotransposons active in callus cultures
por: Kwolek, Kornelia, et al.
Publicado: (2022)

Early selection of carrot somatic hybrids: a promising tool for species with high regenerative ability
por: Mackowska, Katarzyna, et al.
Publicado: (2023)

Vernalization Requirement, but Not Post-Vernalization Day Length, Conditions Flowering in Carrot (Daucus carota L.)
por: Wohlfeiler, Josefina, et al.
Publicado: (2022)

Differential and Cultivar-Dependent Antioxidant Response of Whole and Fresh-Cut Carrots of Different Root Colors to Postharvest UV-C Radiation
por: Valerga, Lucia, et al.
Publicado: (2023)

Genome-wide characterization of simple sequence repeats in cucumber (Cucumis sativus L.)
por: Cavagnaro, Pablo F, et al.
Publicado: (2010)

De Novo Transcriptome Assembly of Pummelo and Molecular Marker Development
por: Liang, Mei, et al.
Publicado: (2015)

Real-time detection of somatic hybrid cells during electrofusion of carrot protoplasts with stably labelled mitochondria
por: Gieniec, Miron, et al.
Publicado: (2020)

Inferring transposons activity chronology by TRANScendence – TEs database and de-novo mining tool
por: Startek, Michał Piotr, et al.
Publicado: (2017)

Development of SSR markers in Paeonia based on De Novo transcriptomic assemblies
por: He, Dan, et al.
Publicado: (2020)

Cannot write session to /tmp/vufind_sessions/sess_l5cadtgtpk3vj8okol6jq3lc2m