Molecular diet analysis of two African free-tailed bats (molossidae) using high throughput sequencing

PLoS ONE

Volumn 6, Issue 6, 2011, Pages

  Bohmann, Kristine ^a   Monadjem, Ara ^b   Noer, Christina ^a   Rasmussen, Morten ^a   Zeale, Matt R K ^c   Clare, Elizabeth ^c   Jones, Gareth ^c   Willerslev, Eske ^a   Gilbert, M Thomas P ^a  

^a UNIVERSITY OF COPENHAGEN   (Denmark)

^b UNIVERSITY OF SWAZILAND   (Swaziland)

^c UNIVERSITY OF BRISTOL   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

CYTOCHROME C OXIDASE; CYTOCHROME C OXIDASE 1; DNA; UNCLASSIFIED DRUG;

ANIMAL FOOD; ANIMAL TISSUE; ARTICLE; BAT; BIOINFORMATICS; CHAEREPHON PUMILUS; CONTROLLED STUDY; DNA BARCODING; FECES ANALYSIS; FLY; FOOD INTAKE; FORELIMB; GENE AMPLIFICATION; HIGH THROUGHPUT SEQUENCING; LEPIDOPTERA; MOPS CONDYLURUS; NOCTUIDAE; NONHUMAN; NUCLEOTIDE SEQUENCE; NUTRIGENOMICS; NYMPHALIDAE; POLYMERASE CHAIN REACTION; PREY; SEQUENCE ANALYSIS; SEQUENCE DATABASE; SOUTH AFRICA; SWAZILAND; SYMPATRY; AFRICA; ANIMAL; DIET; GENETIC VARIABILITY; GENETICS; INSECT; METHODOLOGY; PREDATION; TAIL;

CHAEREPHON PUMILA; DIPTERA; HEXAPODA; LEPIDOPTERA; MOLOSSIDAE; MOPS CONDYLURUS; NOCTUIDAE; NYMPHALIDAE;

AFRICA; ANIMALS; BASE SEQUENCE; CHIROPTERA; DIET; GENETIC VARIATION; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; INSECTS; PREDATORY BEHAVIOR; TAIL;

EID: 79959397022     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0021441     Document Type: Article

References (37)

1. Kohn MH, Wayne RK, (1997) Facts from faeces revisited. Trend Evol Ecol 12: 223-227.
2. Symondson WOC, (2002) Molecular identification of prey in predator diets. Mol Ecol 11: 627-641.
3. Clare EL, Fraser EE, Braid HE, Fenton BM, Hebert PDN, (2009) Species on the menu of a generalist predator, the eastern red bat (Lasiurus borealis): using a molecular approach to detect arthropod prey. Mol Ecol 18: 2532-2542.
4. Clare EL, Barber BR, Sweeney BW, Hebert PDN, Fenton MB, Eating local: Influences of habitat on the diet of little brown bats (Myotis lucifugus). Mol Ecol (in press).
5. Goerlitz HR, Hofstede HM, Zeale MRK, Jones G, Holderied MW, (2010) An aerial-hawking bat uses stealth echolocation to counter moth hearing. Curr Biol 20: 1568-1572.
6. Zeale MRK, Butlin RK, Barker GLA, Lees DC, Jones G, (2011) Taxon-specific PCR for DNA barcoding arthropod prey in bat faeces. Mol Ecol Res 11: 236-244.
7. Bouchard S, (1998) Chaerephon pumilus. 574: 1-6 American Society of Mammalogists, Mammalian Species.
8. Deagle BE, Kirkwood R, Jarman SN, (2009) Analysis of Australian fur seal diet by pyrosequencing prey DNA in faeces. Mol Ecol 18: 2022-2038.
9. Pegard A, Miquel C, Valentini A, Coissac E, Bouvier F, et al. (2009) Universal DNA-based methods for assessing the diet of grazing livestock and wildlife from faeces. J Agr Food Chem 57: 5700-5706.
10. Rasmussen M, Cummings LS, Gilbert MTP, Bryant V, Smith C, et al. (2009) Response to comment by Goldberg,et al. on DNA from pre-Clovis human coprolites in Oregon, North America. Science 325: 148-d.
11. Soininen EM, Valentini A, Coissac E, Miquel C, Gielly L, et al. (2009) Analysing diet of small herbivores: the efficiency of DNA barcoding coupled with high-throughput pyrosequencing for deciphering the composition of complex plant mixtures. Front Zool 6: 16.
12. Valentini A, Miquel C, Nawaz MA, Bellemain E, Coissac E, et al. (2009) New perspectives in diet analysis based on DNA barcoding and parallel pyrosequencing: the trnL approach. Mol Ecol Res 9: 51-60.
13. Binladen J, Gilbert MTP, Bollback JP, Panitz F, Bendixen C, et al. (2007) The use of coded PCR primers enables high-throughput sequencing of multiple homolog amplification products by 454 parallel sequencing. PLoS ONE 2: e1-9.
14. Aspetsberger F, Brandsen D, Jacobs DS, (2003) Geographic variation in the morphology, echolocation and diet of the little free-tailed bat, Chaerephon pumilus (Molissidae). Afr Zool 38: 245-254.
15. Monadjem A, Taylor P, Cotterill FPD, Schoeman MC, (2010) Bats of southern and central Africa: A biogeographic and taxonomic synthesis. Johannesburg University of the Witwatersrand.
16. Jones G, Barlow KE, (2004) Cryptic species of echolocating bats. In: Thomas JA, Moss CF, Vater M, editors. Echolocation in bats and dolphins Chicago The University of Chicago Press pp. 345-349.
17. Kingston T, Lara MC, Jones G, Akbar Z, Kunz TH, et al. (2001) Acoustic divergence in two cryptic Hipposideros species: a role for social selection? Proc Roy Soc Lond B Biol Sci 268: 1381-1386.
18. Happold DCD, Happold M, (1989) Reproduction of Angola free-tailed bats (Tadarida condylura) and little free-tailed bats (Tadarida pumila) in Malawi (Central Africa) and elsewhere in Africa. J Reprod Fertil 85: 133-140.
19. Gannon WL, Sikes RS, the Animal Care and Use Committee of the American Society of Mammalogists (2007) Guidelines of the American Society of Mammalogists for the use of Wild Mammals in Research. J Mammalogy 88: 809-823.
20. Faure PA, Re DE, Clare EL, (2009) Wound healing in the flight membrane of big brown bats. J Mammalogy 90: 1148-1156.
21. Monadjem A, Reside A, (2008) The influence of riparian vegetation in the distribution and abundance of bats in an African savanna. Acta Chiropterol 10: 339-348.
22. Roques KG, O'Connor TG, Watkinson AR, (2001) Dynamics of shrub encroachment in an African savanna: relative influence of fire, herbivory, rainfall and density dependence. J Applied Ecol 38: 268-280.
23. Nsubuga AM, Robbins MM, Roeder AD, Morin PA, Boesch C, et al. (2004) Factors affecting the amount of genomic DNA extracted from ape faeces and the identification of an improved sample storage method. Mol Ecol 13: 2089-2094.
24. Gilbert MTP, Moore W, Melchior L, Worobey M, (2007) DNA extraction from dry museum beetles without conferring external morphological damage. PLoS ONE 2: e272.
25. Rozen S, Skaletsky HJ, (2000) Primer3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S, editors. Bioinformatics Methods and Protocols: Methods in Molecular Biology 365-386 Towtowa, NJ Humana Press.
26. Deagle BE, Eveson JP, Jarman SN, (2006) Quantification of damage in DNA recovered from highly degraded samples - a case study on DNA in faeces. Front Zool 3: 11.
27. Meyer M, Briggs AW, Maricic T, Höber B, Höffner B, et al. (2008) From micrograms to picograms: quantitative PCR reduces the material demands of high-throughput sequencing. Nucleic Acids Res 36: e5.
28. Huson DH, Auch AF, Qi J, Schuster SC, (2007) MEGAN analysis of metagenomic data. Genome Res 17: 377-386.
29. Colwell RK, (2005) EstimateS: Statistical estimation of species richness and shared species from samples. Version 7.5. 05 User's Guide and application available: http://viceroy.eeb.uconn.edu/estimates. Accessed 2011 Jun.
30. Floyd R, Abebe E, Papert A, Blaxter M, (2002) Molecular barcodes for soil nematode identification. Mol Ecol 11: 839-850.
31. Gonzalez JM, Zimmermann J, Saiz-Jimenez C, (2005) Evaluating putative chimeric sequences from PCR-amplified products. Bioinformatics 21: 333-337.
32. Meusnier I, Singer GAC, Landry JF, Hickey DA, Hebert PDN, et al. (2008) A universal DNA mini-barcode for biodiversity analysis. BMC Genomics 9: 214.
33. Hajibabaei M, Janzen DH, Burns JM, Hallwachs W, Hebert PDN, (2006) DNA barcodes distinguish species of tropical Lepidoptera. Proc Natl Acad Sci USA 103: 968-971.
34. Schoeman MC, Jacobs DS, (2003) Support for the allotonic frequency hypothesis in an insectivorous bat community. Oecologia 134: 154-162.
35. Svensson AM, Eklöf J, Skals N, Rydell J, (2003) Light dependent shift in the anti-predator response of a pyralid moth. Oikos 101: 239-246.
36. Fullard JH, Thomas DW, (1981) Detection of certain African, insectivorous bats by sympatric tympanate moths. J Comp Physiol 143: 363-368.
37. Hebert PDN, Penton EH, Burns JM, Janzen DH, Hallwachs W, (2004) Ten species in one: DNA barcoding reveals cryptic species in the Neotropical skipper butterfly Astraptes fulgerator. Proc Natl Acad Sci USA 101: 14812-14817.