Literature DB >> 22312116

Applications of next-generation sequencing in plant biology.

Ashley N Egan1, Jessica Schlueter, David M Spooner.   

Abstract

The last several years have seen revolutionary advances in DNA sequencing technologies with the advent of next-generation sequencing (NGS) techniques. NGS methods now allow millions of bases to be sequenced in one round, at a fraction of the cost relative to traditional Sanger sequencing. As costs and capabilities of these technologies continue to improve, we are only beginning to see the possibilities of NGS platforms, which are developing in parallel with online availability of a wide range of biological data sets and scientific publications and allowing us to address a variety of questions not possible before. As techniques and data sets continue to improve and grow, we are rapidly moving to the point where every organism, not just select "model organisms", is open to the power of NGS. This volume presents a brief synopsis of NGS technologies and the development of exemplary applications of such methods in the fields of molecular marker development, hybridization and introgression, transcriptome investigations, phylogenetic and ecological studies, polyploid genetics, and applications for large genebank collections.

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Year:  2012        PMID: 22312116     DOI: 10.3732/ajb.1200020

Source DB:  PubMed          Journal:  Am J Bot        ISSN: 0002-9122            Impact factor:   3.844


  67 in total

Review 1.  Root systems biology: integrative modeling across scales, from gene regulatory networks to the rhizosphere.

Authors:  Kristine Hill; Silvana Porco; Guillaume Lobet; Susan Zappala; Sacha Mooney; Xavier Draye; Malcolm J Bennett
Journal:  Plant Physiol       Date:  2013-10-18       Impact factor: 8.340

Review 2.  Plant Taxonomy: A Historical Perspective, Current Challenges, and Perspectives.

Authors:  Germinal Rouhan; Myriam Gaudeul
Journal:  Methods Mol Biol       Date:  2021

Review 3.  Quantitative trait loci from identification to exploitation for crop improvement.

Authors:  Jitendra Kumar; Debjyoti Sen Gupta; Sunanda Gupta; Sonali Dubey; Priyanka Gupta; Shiv Kumar
Journal:  Plant Cell Rep       Date:  2017-03-28       Impact factor: 4.570

4.  RNA-Seq analysis of rye-grass transcriptomic response to an herbicide inhibiting acetolactate-synthase identifies transcripts linked to non-target-site-based resistance.

Authors:  Arnaud Duhoux; Sébastien Carrère; Jérôme Gouzy; Ludovic Bonin; Christophe Délye
Journal:  Plant Mol Biol       Date:  2015-01-31       Impact factor: 4.076

5.  A new approach for investigating venom function applied to venom calreticulin in a parasitoid wasp.

Authors:  Aisha L Siebert; David Wheeler; John H Werren
Journal:  Toxicon       Date:  2015-09-07       Impact factor: 3.033

Review 6.  Evolutionary consequences, constraints and potential of polyploidy in plants.

Authors:  H Weiss-Schneeweiss; K Emadzade; T-S Jang; G M Schneeweiss
Journal:  Cytogenet Genome Res       Date:  2013-06-18       Impact factor: 1.636

7.  Flow sorting and sequencing meadow fescue chromosome 4F.

Authors:  David Kopecký; Mihaela Martis; Jarmila Číhalíková; Eva Hřibová; Jan Vrána; Jan Bartoš; Jitka Kopecká; Federica Cattonaro; Štěpán Stočes; Petr Novák; Pavel Neumann; Jiří Macas; Hana Šimková; Bruno Studer; Torben Asp; James H Baird; Petr Navrátil; Miroslava Karafiátová; Marie Kubaláková; Jan Šafář; Klaus Mayer; Jaroslav Doležel
Journal:  Plant Physiol       Date:  2013-10-04       Impact factor: 8.340

8.  Identification and validation of superior housekeeping gene(s) for qRT-PCR data normalization in Agave sisalana (a CAM-plant) under abiotic stresses.

Authors:  Muhammad Bilal Sarwar; Zarnab Ahmad; Batcho Agossa Anicet; Moon Sajid; Bushra Rashid; Sameera Hassan; Mukhtar Ahmed; Tayyab Husnain
Journal:  Physiol Mol Biol Plants       Date:  2020-02-04

9.  Comparative transcriptome analysis to investigate the high starch accumulation of duckweed (Landoltia punctata) under nutrient starvation.

Authors:  Xiang Tao; Yang Fang; Yao Xiao; Yan-Ling Jin; Xin-Rong Ma; Yun Zhao; Kai-Ze He; Hai Zhao; Hai-Yan Wang
Journal:  Biotechnol Biofuels       Date:  2013-05-08       Impact factor: 6.040

10.  Comparative genome analysis and phylogenetic relationship of order Liliales insight from the complete plastid genome sequences of two Lilies (Lilium longiflorum and Alstroemeria aurea).

Authors:  Jung Sung Kim; Joo-Hwan Kim
Journal:  PLoS One       Date:  2013-06-18       Impact factor: 3.240

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