Bioinformatics at COMAV

Dissemination articles

Journal

Title

El país. 2021

El tomate no es natural, es un tesoro creado por el ingenio humano

The conversation. 2022

La domesticación del tomate en América: un viaje de ida y vuelta

The conversation. 2022

Historia del tomate: del desprecio de las élites al éxito industrial

Publications

2022

Journal

Title

Journal of Experimental Botany

European traditional tomatoes galore: a result of farmers’ selection of a few diversity-rich loci

Horticulture Research

Haplotype analyses reveal novel insights into tomato history and domestication driven by long-distance migrations and latitudinal adaptations

2021

Journal

Title

Planta

Large-scale gene gains and losses molded the NLR defense arsenal during the Cucurbita evolution

Int J Mol Sci

Early Embryo Exposure to Assisted Reproductive Manipulation Induced Subtle Changes in Liver Epigenetics with No Apparent Negative Health Consequences in Rabbit

Agronomy

Integrative Transcriptomic and Metabolomic Analysis at Organ Scale Reveals Gene Modules Involved in the Responses to Suboptimal Nitrogen Supply in Tomato

Industrial Crops and Products

Flower induction and development in saffron: Timing and hormone signalling pathways

Plant Methods

K-seq, an affordable, reliable, and open Klenow NGS-based genotyping technology

Genes

Discovery of a Major QTL Controlling Trichome IV Density in Tomato Using K-Seq Genotyping

J Sci Food Agric

Transcriptomic analysis of a near‐isogenic line of melon with high fruit flesh firmness during ripening

2020

Journal

Title

Scientific Reports

Long-term and transgenerational phenotypic, transcriptional and metabolic effects in rabbit males born following vitrified embryo transfer

Horticulture Research

Exploiting the diversity of tomato: the development of a phenotypically and genetically detailed germplasm collection

Frontiers in Plant Sciene

A Major QTL Located in Chromosome 8 of Cucurbita moschata Is Responsible for Resistance to Tomato Leaf Curl New Delhi Virus

2019

Journal

Title

Nature Genetics

The tomato pan-genome uncovers new genes and a rare allele regulating fruit flavor

PLOS One

De novo European eel transcriptome provides insights into the evolutionary history of duplicated genes in teleost lineages

BMC Genomics

Cold seawater induces early sexual developmental stages in the BPG axis of European eel males

Nucleic Acid Research

Cucurbit Genomics Database (CuGenDB): a central portal for comparative and functional genomics of cucurbit crops

Horticulture Research

Whole-genome resequencing of Cucurbita pepo morphotypes to discover genomic variants associated with morphology and horticulturally valuable traits

2018

Journal

Title

BMC Plant Biology

Resistance to Plum Pox Virus (PPV) in apricot (Prunus armeniaca L.) is associated with down-regulation of two MATHd genes

BMC Genomics

Transcriptomic changes in Cucurbita pepo fruit after cold storage: differential response between two cultivars contrasting in chilling sensitivity

Frontiers in Plant Science

Plant Genebanks: Present Situation and Proposals for Their Improvement. the Case of the Spanish Network

2017

Journal

Title

Nucleid Acid Research

GB3.0: a platform for plant bio-design that connects functional DNA elements with associated biological data

BMC Genomics

An SNP-based saturated genetic map and QTL analysis of fruit-related traits in Zucchini using Genotyping-by-sequencing

Plant Biotechnology journal

De novo assembly of the zucchini genome reveals a whole genome duplication associated with the origin of the Cucurbita genus

2016

Journal

Title

Plant Methods

A modular toolbox for gRNA–Cas9 genome engineering in plants based on the GoldenBraid standard

BMC Genomics

Transcriptomic profiling of Melon necrotic spot virus-infected melon plants revealed virus strain and plant cultivar-specific alterations

BMC Genomics

The first de novo transcriptome of pepino (Solanum muricatum): assembly, comprehensive analysis and comparison with the closely related species S. caripense, potato and tomato

BMC Genomics

Transcriptome analysis and molecular marker discovery in Solanum incanum and S. aethiopicum, two close relatives of the common eggplant (Solanum melongena) with interest for breeding

Archives of Virology

Analysis of the coding-complete genomic sequence of groundnut ringspot virus suggests a common ancestor with tomato chlorotic spot virus

2015

Journal

Title

BMC Genomics

Genomic variation in tomato, from wild ancestors to contemporary breeding accessions

BMC Genomics

Comparative transcriptional profiling analysis of developing melon (Cucumis melo L.) fruit from climacteric and non-climacteric varieties

2014

Journal

Title

BMC Biology

ABCC transporters mediate insect resistance to multiple Bt toxins revealed by bulk segregant analysis

2013

Journal

Title

Euphytica

Spanish onion landraces (Allium cepa L.) as sources of germplasm for breeding calçots: a morphological and molecular survey

Proc Natl Acad Sci U S A

A cytochrome P450 regulates a domestication trait in cultivated tomato

Plant Physiology

GoldenBraid2.0: A comprehensive DNA assembly framework for Plant Synthetic Biology

Molecular Plant Pathology

Genomic analysis reveals MATH gene(s) as candidate(s) for Plum pox virus (PPV) resistance in apricot (Prunus armeniaca L.)

TAG

SNP genotyping in melons: Genetic variation, population structure and linkage disequilibrium

2012

Journal

Title

Plant Molecular Biology Reporter

A Cost-effective Double-Stranded cDNA Synthesis for Plant Microarrays

PLOS One

Variation Revealed by SNP Genotyping and Morphology Provides Insight into the Origin of the Tomato

Proc Natl Acad Sci U S A

The genome of melon (Cucumis melo L.)

BMC Genomics

Transcriptome sequencing for SNP discovery across Cucumis melo

Insect Biochemistry and Molecular Biology

The transcriptome of Spodoptera exigua larvae exposed to different types of microbes

BMC Genomics

High-throughput SNP genotyping in Cucurbita pepo for map construction and quantitative trait loci mapping

2011

Journal

Title

Sciencia Horticulturae

The risks of success in quality vegetable markets: Possible genetic erosion in Marmande tomatoes (Solanum lycopersicum L.) and consumer dissatisfaction.

Mol Plant Microbe Interact

Microarray analysis shows that recessive resistance to Watermelon mosaic virus in melon is associated with the induction of defense response genes.

BMC Plant Biology

A consensus linkage map for molecular markers and Quantitative Trait Loci associated with economically important traits in melon (Cucumis melo L.)

BMC Genomics

Analysis of the melon (Cucumis melo) small RNAome by high-throughput pyrosequencing

Genet Resour Crop Evol

Genetic basis of long shelf life and variability into Penjar tomato.

BMC Genomics

ngs_backbone: a pipeline for read cleaning, mapping and SNP calling using Next Generation Sequence.

The Plant Genome

Melon Transcriptome Characterization: Simple Sequence Repeats and Single Nucleotide Polymorphisms Discovery for High Throughput Genotyping across the Species.

BMC Genomics

Transcriptome characterization and high throughput SSRs and SNPs discovery in Cucurbita pepo (Cucurbitaceae)

Genet Resour Crop Evol

Taxonomy and genetic diversity of domesticated Capsicum species in the Andean region.

2010

Journal

Title

BMC Genomics

EcoTILLING in Capsicum species: searching for new virus resistances

Genet Res Crop Evol

Pattern of genetic variability of Solanum habrochaites in its natural area of distribution

2009

Journal

Title

Genet Res Crop Evol

Classification and phylogenetic relationships in Solanum section Lycopersicon based on AFLP and two nuclear gene sequences

Genet Res Crop Evol

Genetic and bioclimatic variation in Solanum pimpinellifolium

BMC Plant Biology

Transcriptomic analysis of tomato carpel development reveals alterations in ethylene and gibberellin synthesis during pat3/pat4 parthenocarpic fruit set

BMC Plant Biology

A set of EST-SNPs for map saturation and cultivar identification in melon

BMC Genomics

An oligo-based microarray offers novel transcriptomic approaches for the analysis of pathogen resistance and fruit quality traits in melon (Cucumis melo L.)

2008

Journal

Title

BMC Bioinformatics

MELOGEN: an EST database for melon functional genomics

TAG

Bin mapping of genomic and EST-derived SSRs in melon ( Cucumis melo L.)

Plant Disease

Tomato torrado virus is Transmitted by Bemisia tabaci and Infects Pepper and Eggplant in Addition to Tomato

2007

Journal

Title

Am J Bot

AFLP and DNA sequence variation in an Andean domesticate, pepino (Solanum muricatum, Solanaceae): implications for evolution and domestication

Plant Science

Analysis of gene expression during the fruit set of tomato: A comparative approach

Genet Res Crop Evol

Genetic structure of Lycopersicon pimpinellifolium (Solanaceae) populations collected after the ENSO event 1997-1998

Eur J Plant Pathol

Identification of a CAPS marker tightly linked to the Tomato yellow leaf curl disease resistance gene Ty-1 in tomato

2006

Journal

Title

Systematic Botany

The Implications of AFLP Data for the Systematics of the Wild Species of Solanum section Basarthrum

2004

Journal

Title

Am J Bot

Relationships, origin, and diversity of Galápagos tomatoes: implications for the conservation of natural populations

2002

Journal

Title

Hum Mutat

Mutations in myosin VIIA (MYO7A) and usherin (USH2A) in Spanish patients with Usher syndrome types I and II, respectively

Proc Natl Acad Sci U S A

A nuclear export signal within the high mobility group domain regulates the nucleocytoplasmic translocation of SOX9 during sexual determination

2001

Journal

Title

Nucleic Acids Res

SOX7 transcription factor: sequence, chromosomal localisation, expression,transactivation and interference with Wnt signalling

2000

Journal

Title

Gene

dfh is a Drosophila homolog of the Friedreich’s ataxia disease gene

Genome

Tirant is a new member of the gypsy family of retrotransposons in Drosophila melanogaster

1999

Journal

Title

Mol Biol Evol

Incipient GAA repeats in the primate Friedreich ataxia homologous genes

1997

Journal

Title

Am J Hum Genet

Phenotype correlation and intergenerational dynamics of the Friedreich ataxia GAA trinucleotide repeat

Nature Genetics

Frataxin fracas

1996

Journal

Title

Science

Friedreich’s Ataxia: autosomal recessive disease caused by an intronic GAA triplet repeat

Eur J Hum Genet

Evidence for a common origin of most Friedreich’s ataxia chromosomes in the Spanish population

1994

Journal

Title

Eur J Hum Genet

Mapping of Friedreich’s Ataxia locus by identification of recombination events in patients homozygous by descent