ArticleBMC plant biology2010
An examination of targeted gene neighborhoods in strawberry.
Article in BMC plant biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
14 citing papers in PubMed, 30 citations in OpenAlex.
- Prediction of Rice Transcription Start Sites Using TransPrise: A Novel Machine Learning Approach.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Construction of an anchoring SSR marker genetic linkage map and detection of a sex-linked region in two dioecious populations of red bayberry.Horticulture research · 2020Article
- Article
- The strawberry genome: a complicated past and promising future.Horticulture research · 2019Review
- XTHs from Fragaria vesca: genomic structure and transcriptomic analysis in ripening fruit and other tissues.BMC genomics · 2017Article
- Application of subtracted gDNA microarray-assisted Bulked Segregant Analysis for rapid discovery of molecular markers associated with day-neutrality in strawberry (Fragaria x ananassa).Scientific reports · 2016Article
- Somatic embryogenesis, tetraploidy, and variant leaf morphology in transgenic diploid strawberry (Fragaria vesca subspecies vesca 'Hawaii 4').BMC plant biology · 2014Article
- A phylogenetic analysis of the genus Fragaria (strawberry) using intron-containing sequence from the ADH-1 gene.PloS one · 2014Article
- Insights into the loblolly pine genome: characterization of BAC and fosmid sequences.PloS one · 2013Article
- Conservation and loss of ribosomal RNA gene sites in diploid and polyploid Fragaria (Rosaceae).BMC plant biology · 2011Article
- Integration of physical and genetic maps in apple confirms whole-genome and segmental duplications in the apple genome.Journal of experimental botany · 2011Article
- The first insight into the Taxus genome via fosmid library construction and end sequencing.Molecular genetics and genomics : MGG · 2011Article
- The genome of woodland strawberry (Fragaria vesca).Nature genetics · 2011Article
- Comparative genomic sequence analysis of strawberry and other rosids reveals significant microsynteny.BMC research notes · 2010Article
Corrections and comments
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Authors and funding
10 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundStrawberry (Fragaria spp.) is the familiar name of a group of economically important crop plants and wild relatives that also represent an emerging system for the study of gene and genome evolution. Its small stature, rapid seed-to-seed cycle, transformability and miniscule basic genome make strawberry an attractive system to study processes related to plant physiology, development and crop production; yet it lacks substantial genomics-level resources. This report addresses this deficiency by characterizing 0.71 Mbp of gene space from a diploid species (F. vesca). The twenty large genomic tracks (30-52 kb) captured as fosmid inserts comprise gene regions with roles in flowering, disease resistance, and metabolism.
resultsA detailed description of the studied regions reveals 131 Blastx-supported gene sites and eight additional EST-supported gene sites. Only 15 genes have complete EST coverage, enabling gene modelling, while 76 lack EST support. Instances of microcolinearity with Arabidopsis thaliana were identified in twelve inserts. A relatively high portion (25%) of targeted genes were found in unanticipated tandem duplications. The effectiveness of six FGENESH training models was assessed via comparisons among ab initio predictions and homology-based gene and start/stop codon identifications. Fourteen transposable-element-related sequences and 158 simple sequence repeat loci were delineated.
conclusionsThis report details the structure and content of targeted regions of the strawberry genome. The data indicate that the strawberry genome is gene-dense, with an average of one protein-encoding gene or pseudogene per 5.9 kb. Current overall EST coverage is sparse. The unexpected gene duplications and their differential patterns of EST support suggest possible subfunctionalization or pseudogenization of these sequences. This report provides a high-resolution depiction of targeted gene neighborhoods that will aid whole-genome sequence assembly, provide valuable tools for plant breeders and advance the understanding of strawberry genome evolution.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.