Next-generation biology: sequencing and data analysis approaches for non-model organisms

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

Next-generation biology : sequencing and data analysis approaches for non-model organisms. / Rodrigues da Fonseca, Rute Andreia; Albrechtsen, Anders; Themudo, Goncalo Espregueira Cruz; Ramos Madrigal, Jazmin; Sibbesen, Jonas Andreas; Sørensen, Lasse Maretty; Zepeda Mendoza, Marie Lisandra; Campos, Paula; Heller, Rasmus; Pereira, Ricardo.

In: Marine Genomics, Vol. 30, 2016, p. 3-13.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Rodrigues da Fonseca, RA, Albrechtsen, A, Themudo, GEC, Ramos Madrigal, J, Sibbesen, JA, Sørensen, LM, Zepeda Mendoza, ML, Campos, P, Heller, R & Pereira, R 2016, 'Next-generation biology: sequencing and data analysis approaches for non-model organisms', Marine Genomics, vol. 30, pp. 3-13. https://doi.org/10.1016/j.margen.2016.04.012

APA

Rodrigues da Fonseca, R. A., Albrechtsen, A., Themudo, G. E. C., Ramos Madrigal, J., Sibbesen, J. A., Sørensen, L. M., Zepeda Mendoza, M. L., Campos, P., Heller, R., & Pereira, R. (2016). Next-generation biology: sequencing and data analysis approaches for non-model organisms. Marine Genomics, 30, 3-13. https://doi.org/10.1016/j.margen.2016.04.012

Vancouver

Rodrigues da Fonseca RA, Albrechtsen A, Themudo GEC, Ramos Madrigal J, Sibbesen JA, Sørensen LM et al. Next-generation biology: sequencing and data analysis approaches for non-model organisms. Marine Genomics. 2016;30:3-13. https://doi.org/10.1016/j.margen.2016.04.012

Author

Rodrigues da Fonseca, Rute Andreia ; Albrechtsen, Anders ; Themudo, Goncalo Espregueira Cruz ; Ramos Madrigal, Jazmin ; Sibbesen, Jonas Andreas ; Sørensen, Lasse Maretty ; Zepeda Mendoza, Marie Lisandra ; Campos, Paula ; Heller, Rasmus ; Pereira, Ricardo. / Next-generation biology : sequencing and data analysis approaches for non-model organisms. In: Marine Genomics. 2016 ; Vol. 30. pp. 3-13.

Bibtex

@article{490af935915e4fd29d9606f15280891c,
title = "Next-generation biology: sequencing and data analysis approaches for non-model organisms",
abstract = "As sequencing technologies become more affordable, it is now realistic to propose studying the evolutionary history of virtually any organism on a genomic scale. However, when dealing with non-model organisms it is not always easy to choose the best approach given a specific biological question, a limited budget, and challenging sample material. Furthermore, although recent advances in technology offer unprecedented opportunities for research in non-model organisms, they also demand unprecedented awareness from the researcher regarding the assumptions and limitations of each method. In this review we present an overview of the current sequencing technologies and the methods used in typical high-throughput data analysis pipelines. Subsequently, we contextualize high-throughput DNA sequencing technologies within their applications in non-model organism biology. We include tips regarding managing unconventional sample material, comparative and population genetic approaches that do not require fully assembled genomes, and advice on how to deal with low depth sequencing data.",
author = "{Rodrigues da Fonseca}, {Rute Andreia} and Anders Albrechtsen and Themudo, {Goncalo Espregueira Cruz} and {Ramos Madrigal}, Jazmin and Sibbesen, {Jonas Andreas} and S{\o}rensen, {Lasse Maretty} and {Zepeda Mendoza}, {Marie Lisandra} and Paula Campos and Rasmus Heller and Ricardo Pereira",
note = "Copyright {\textcopyright} 2016 The Authors. Published by Elsevier B.V. All rights reserved.",
year = "2016",
doi = "10.1016/j.margen.2016.04.012",
language = "English",
volume = "30",
pages = "3--13",
journal = "Marine Genomics",
issn = "1874-7787",
publisher = "Elsevier",

}

RIS

TY - JOUR

T1 - Next-generation biology

T2 - sequencing and data analysis approaches for non-model organisms

AU - Rodrigues da Fonseca, Rute Andreia

AU - Albrechtsen, Anders

AU - Themudo, Goncalo Espregueira Cruz

AU - Ramos Madrigal, Jazmin

AU - Sibbesen, Jonas Andreas

AU - Sørensen, Lasse Maretty

AU - Zepeda Mendoza, Marie Lisandra

AU - Campos, Paula

AU - Heller, Rasmus

AU - Pereira, Ricardo

N1 - Copyright © 2016 The Authors. Published by Elsevier B.V. All rights reserved.

PY - 2016

Y1 - 2016

N2 - As sequencing technologies become more affordable, it is now realistic to propose studying the evolutionary history of virtually any organism on a genomic scale. However, when dealing with non-model organisms it is not always easy to choose the best approach given a specific biological question, a limited budget, and challenging sample material. Furthermore, although recent advances in technology offer unprecedented opportunities for research in non-model organisms, they also demand unprecedented awareness from the researcher regarding the assumptions and limitations of each method. In this review we present an overview of the current sequencing technologies and the methods used in typical high-throughput data analysis pipelines. Subsequently, we contextualize high-throughput DNA sequencing technologies within their applications in non-model organism biology. We include tips regarding managing unconventional sample material, comparative and population genetic approaches that do not require fully assembled genomes, and advice on how to deal with low depth sequencing data.

AB - As sequencing technologies become more affordable, it is now realistic to propose studying the evolutionary history of virtually any organism on a genomic scale. However, when dealing with non-model organisms it is not always easy to choose the best approach given a specific biological question, a limited budget, and challenging sample material. Furthermore, although recent advances in technology offer unprecedented opportunities for research in non-model organisms, they also demand unprecedented awareness from the researcher regarding the assumptions and limitations of each method. In this review we present an overview of the current sequencing technologies and the methods used in typical high-throughput data analysis pipelines. Subsequently, we contextualize high-throughput DNA sequencing technologies within their applications in non-model organism biology. We include tips regarding managing unconventional sample material, comparative and population genetic approaches that do not require fully assembled genomes, and advice on how to deal with low depth sequencing data.

U2 - 10.1016/j.margen.2016.04.012

DO - 10.1016/j.margen.2016.04.012

M3 - Journal article

C2 - 27184710

VL - 30

SP - 3

EP - 13

JO - Marine Genomics

JF - Marine Genomics

SN - 1874-7787

ER -

ID: 161560605