Collections-based research in the genomic era

被引:61
作者
Buerki, Sven [1 ]
Baker, William J. [2 ]
机构
[1] Nat Hist Museum, Dept Life Sci, London SW7 5BD, England
[2] Royal Bot Gardens, Richmond TW9 3AB, Surrey, England
关键词
museomics; next-generation sequencing; phylogenomics; phylogeny; taxonomy; tree of life; PHYLOGENY RECONSTRUCTION; MOLECULAR SYSTEMATICS; FOSSILS; MISIDENTIFICATION; EXAMPLE; HISTORY; FUTURE; LIFE; DNA;
D O I
10.1111/bij.12721
中图分类号
Q [生物科学];
学科分类号
07 ; 0710 ; 09 ;
摘要
Biological collections are at the front line of biodiversity research, informing taxonomy, evolution, conservation and sustainable livelihoods. In April 2014, we organised a meeting at the Linnean Society (UK) discussing the impact of next-generation sequencing (NGS) methods on collections-based research. Here, we explore the main themes of this meeting and outline the incredible potential of NGS to reinvent collections-based research. Among the many opportunities at the interface of genomics and collections, we focus specifically on (1) the genomic characterisation of biological collections, (2) the enhancement and development of DNA-based identification, (3) the tree of life and (4) interdisciplinary research addressing the most pressing environmental challenges of our times. Across the world, biological collections are at risk, primarily due to declining funding and shifts in scientific fashions. We encourage all users of collections to embrace the genomic era, not only because of the unparalleled scientific potential that it presents, but also because new cross-disciplinary synergies will reinvigorate and secure the collections for future generations. (C) 2015 The Linnean Society of London,
引用
收藏
页码:5 / 10
页数:6
相关论文
共 42 条
[1]   The use of museum samples for large-scale sequence capture: a study of congeneric horseshoe bats (family Rhinolophidae) [J].
Bailey, Sebastian E. ;
Mao, Xiuguang ;
Struebig, Monika ;
Tsagkogeorga, Georgia ;
Csorba, Gabor ;
Heaney, Lawrence R. ;
Sedlock, Jodi ;
Stanley, William ;
Rouillard, Jean-Marie ;
Rossiter, Stephen J. .
BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, 2016, 117 (01) :58-70
[2]   Herbarium genomics: plastome sequence assembly from a range of herbarium specimens using an Iterative Organelle Genome Assembly pipeline [J].
Bakker, Freek T. ;
Lei, Di ;
Yu, Jiaying ;
Mohammadin, Setareh ;
Wei, Zhen ;
van de Kerke, Sara ;
Gravendeel, Barbara ;
Nieuwenhuis, Mathijs ;
Staats, Martijn ;
Alquezar-Planas, David E. ;
Holmer, Rens .
BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, 2016, 117 (01) :33-43
[3]   Early evolution of the angiosperm clade Asteraceae in the Cretaceous of Antarctica [J].
Barreda, Viviana D. ;
Palazzesi, Luis ;
Telleria, Maria C. ;
Olivero, Eduardo B. ;
Raine, J. Ian ;
Forest, Felix .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2015, 112 (35) :10989-10994
[4]   Valuing museum specimens: high-throughput DNA sequencing on historical collections of New Guinea crowned pigeons (Goura) [J].
Besnard, Guillaume ;
Bertrand, Joris A. M. ;
Delahaie, Boris ;
Bourgeois, Yann X. C. ;
Lhuillier, Emeline ;
Thebaud, Christophe .
BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, 2016, 117 (01) :71-82
[5]   Unexpected evolutionary diversity in a recently extinct Caribbean mammal radiation [J].
Brace, Selina ;
Turvey, Samuel T. ;
Weksler, Marcelo ;
Hoogland, Menno L. P. ;
Barnes, Ian .
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 2015, 282 (1807)
[6]  
Bridson D., 2010, Herbarium Handbook, V3rd ed
[7]   Incorporating evolutionary history into conservation planning in biodiversity hotspots [J].
Buerki, Sven ;
Callmander, Martin W. ;
Bachman, Steven ;
Moat, Justin ;
Labat, Jean-Noel ;
Forest, Felix .
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 2015, 370 (1662) :1-8
[8]   Straightening out the screw-pines: A first step in understanding phylogenetic relationships within Pandanaceae [J].
Buerki, Sven ;
Callmander, Martin W. ;
Devey, Dion S. ;
Chappell, Lauren ;
Gallaher, Timothy ;
Munzinger, Jerome ;
Haevermans, Thomas ;
Forest, Felix .
TAXON, 2012, 61 (05) :1010-1020
[9]   Accelerated modern human-induced species losses: Entering the sixth mass extinction [J].
Ceballos, Gerardo ;
Ehrlich, Paul R. ;
Barnosky, Anthony D. ;
Garcia, Andres ;
Pringle, Robert M. ;
Palmer, Todd M. .
SCIENCE ADVANCES, 2015, 1 (05)
[10]   Tales from the crypt: genome mining from fungarium specimens improves resolution of the mushroom tree of life [J].
Dentinger, Bryn T. M. ;
Gaya, Ester ;
O'Brien, Heath ;
Suz, Laura M. ;
Lachlan, Robert ;
Diaz-Valderrama, Jorge R. ;
Koch, Rachel A. ;
Aime, M. Catherine .
BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, 2016, 117 (01) :11-32