Genetica

, Volume 143, Issue 2, pp 129–132

Next-generation sequencing as a powerful motor for advances in the biological and environmental sciences

Article

Abstract

Next-generation sequencing (NGS) provides unprecedented insight into (meta)genomes, (meta)transcriptomes (cDNA) and (meta)barcodes of individuals, populations and communities of Archaea, Bacteria and Eukarya, as well as viruses. This special issue combines reviews and original papers reporting technical and scientific advances in genomics and transcriptomics of non-model species, as well as quantification and functional analyses of biodiversity using NGS technologies of the second and third generations. In addition, certain papers also exemplify the transition from Sanger to NGS barcodes in molecular taxonomy.

Keywords

Next-generation sequencing (NGS) Rad-seq Illumina PacBio 454-Pyrosequencing 

References

  1. Aznar-Cormano L, Brisset J, Chan TY, Corbari L, Puillandre N, Utge J, Zbinden M, Zuccon D, Samadi S (2015) An improved taxonomic sampling is a necessary 1 but not sufficient condition for resolving inter-families relationships in Caridean decapods. Genetica. doi:10.1007/s10709-014-9807-0
  2. Baker M (2010) Next-generation sequencing: adjusting to data overload. Nat Methods 7:495–499CrossRefGoogle Scholar
  3. Bellanger JM, Moreau PA, Corriol G, Bidaud A, Chalange R, Dudova Z, Richard F (2015) Plunging hands into the mushroom jar: a phylogenetic framework for Lyophyllaceae (Agaricales, Basidiomycota). Genetica. doi:10.1007/s10709-015-9823-8
  4. Graveley BR (2008) Molecular biology: power sequencing. Nature 453:1197–1198CrossRefPubMedGoogle Scholar
  5. Gurgul A, Jasielczuk I, Szmatoła T, Pawlina K, Ząbek T, Żukowski K, Bugno-Poniewierska M (2015) Genome-wide characteristics of copy number variation in Polish Holstein and Polish Red cattle using SNP genotyping assay. Genetica. doi:10.1007/s10709-015-9822-9
  6. Henri H, Cariou M, Terraz G, Martinez S, el Filali A, Veyssiere M, Duret L, Charlat S (2015) Optimization of multiplexed RADseq libraries using low-cost adaptors. Genetica. doi:10.1007/s10709-015-9828-3
  7. Khayi S, Raoul des Essarts Y, Quêtu-Laurent A, Moumni M, Hélias V, Faure D (2014) Genomic overview of the phytopathogen Pectobacterium wasabiae strain RNS2 08.42.1A suggests horizontal acquisition of quorum-sensing genes. Genetica. doi:10.1007/s10709-014-9793-2
  8. Kwasiborski A, Mondy S, Chong TM, Chan KG, Beury-Cirou A, Faure D (2015) Core genome and plasmidome of the quorum-quenching bacterium Rhodococcus erythropolis. Genetica. doi:10.1007/s10709-015-9827-4
  9. Loman NJ, Misra RV, Dallman TJ, Constantinidou C, Gharbia SE, Wain J, Pallen MJ (2012) Performance comparison of benchtop high-throughput sequencing platforms. Nat Biotechnol 30:434–439CrossRefPubMedGoogle Scholar
  10. Marchant A, Mougel1 F, Almeida C, Jacquin-Joly E, Costa J, Harry M (2014) De novo transcriptome assembly for a non-model species, the blood-sucking bug Triatoma brasiliensis, a vector of Chagas disease. Genetica. doi:10.1007/s10709-014-9790-5
  11. Normile D (2012) China’s sequencing powerhouse comes of age. Science 335:516–519CrossRefPubMedGoogle Scholar
  12. Pascault N, Loux V, Derozier S, Martin V, Debroas D, Maloufi S, Humbert JF, Leloup J (2014) Technical challenges in metatranscriptomic studies applied to the bacterial communities of freshwater ecosystems. Genetica. doi:10.1007/s10709-014-9783-4
  13. Pompanon F, Samadi S (2015) Next generation sequencing for characterizing biodiversity: promises and challenges. Genetica. doi:10.1007/s10709-015-9816-7
  14. Robuchon M, Valero M, Gey D, Le Gall L (2014) How does molecular-assisted identification affect our estimation of α, β and γ biodiversity? An example from understory red seaweeds (Rhodophyta) of Laminaria kelp forests in Brittany, France. Genetica. doi:10.1007/s10709-014-9796-z
  15. Sanger F, Nicklen S, Coulson AR (1977) DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci USA 74(12):5463–5467CrossRefPubMedCentralPubMedGoogle Scholar
  16. Stein LD (2010) The case for cloud computing in genome informatics. Genome Biol 11:207CrossRefPubMedCentralPubMedGoogle Scholar

Copyright information

© Springer International Publishing Switzerland 2015

Authors and Affiliations

  1. 1.GDR3692 Génomique Environnementale, CNRSUniversité Paris-SudGif-sur-Yvette CedexFrance
  2. 2.UMR9198, CNRS, CEA, Institut for Integrative Biology of the Cell, Saclay Plant SciencesUniversité Paris-SudGif-sur-Yvette CedexFrance
  3. 3.Laboratoire Evolution, Génomes, Comportement, Ecologie, UMR9191CNRS-IRD-Paris-SudGif-sur-Yvette CedexFrance

Personalised recommendations