ArticleGenetica2010
Rapidly developing functional genomics in ecological model systems via 454 transcriptome sequencing.
Article in Genetica, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 55 papers.
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Who cites it
55 citing papers in PubMed.
- RNA-Seq Transcriptome Analysis of the Liver and Brain of the Black Carp (Mylopharyngodon piceus) During Fasting.Marine biotechnology (New York, N.Y.) · 2021Article
- Comparative physiological and transcriptomic analyses of photosynthesis in Sphagneticola calendulacea (L.) Pruski and Sphagneticola trilobata (L.) Pruski.Scientific reports · 2020Article
- Molecular footprints of selection effects and whole genome duplication (WGD) events in three blueberry species: detected by transcriptome dataset.BMC plant biology · 2020Article
- Article
- The transcriptome of a "sleeping" invader: de novo assembly and annotation of the transcriptome of aestivating Cornu aspersum.BMC genomics · 2017Article
- Liver Transcriptome Analysis of the Large Yellow Croaker (Larimichthys crocea) during Fasting by Using RNA-Seq.PloS one · 2016Article
- Transcriptomic Analysis of Eucryptorrhynchus chinensis (Coleoptera: Curculionidae) Using 454 Pyrosequencing Technology.Journal of insect science (Online) · 2016Article
- Article
- De novo transcriptome characterization of Lilium 'Sorbonne' and key enzymes related to the flavonoid biosynthesis.Molecular genetics and genomics : MGG · 2015Article
- Genome-wide transcriptome analysis of Chinese pollination-constant nonastringent persimmon fruit treated with ethanol.BMC genomics · 2014Article
- A comparison of next generation sequencing technologies for transcriptome assembly and utility for RNA-Seq in a non-model bird.PloS one · 2014Article
- The development of a high density linkage map for black tiger shrimp (Penaeus monodon) based on cSNPs.PloS one · 2014Article
- Comparative analyses of two Geraniaceae transcriptomes using next-generation sequencing.BMC plant biology · 2013Article
- Article
- Article
- Allele identification for transcriptome-based population genomics in the invasive plant Centaurea solstitialis.G3 (Bethesda, Md.) · 2013Article
- Tissue-specific transcriptomics in the field cricket Teleogryllus oceanicus.G3 (Bethesda, Md.) · 2013Article
- Transcriptome of the dead: characterisation of immune genes and marker development from necropsy samples in a free-ranging marine mammal.BMC genomics · 2013Article
- Assessment of the geographic origins of pinewood nematode isolates via single nucleotide polymorphism in effector genes.PloS one · 2013Article
- Cross-amplification and validation of SNPs conserved over 44 million years between seals and dogs.PloS one · 2013Article
Corrections and comments
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Authors and funding
1 author.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Next generation sequencing technology affords new opportunities in ecological genetics. This paper addresses how an ecological genetics research program focused on a phenotype of interest can quickly move from no genetic resources to having various functional genomic tools. 454 sequencing and its error rates are discussed, followed by a review of de novo transcriptome assemblies focused on the first successful de novo assembly which happens to be in an ecological model system (the Glanville fritillary butterfly). The potential future developments in 454 sequencing are also covered. Particular attention is paid to the difficulties ecological geneticists are likely to encounter through reviewing relevant studies in both model and non-model systems. Various post-sequencing issues and applications of 454 generated data are presented (e.g. database management, microarray construction, molecular marker and candidate gene development). How to use species with genomic resources to inform study of those without is also discussed. In closing, some of the drawbacks of 454 sequencing are presented along with future prospects of this technology.
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Registered trials
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.