Small mammal surveys in Sumatra and Bangka islands, Indonesia (2009 & 2011)

This dataset corresponds to surveys carried out in Sumatra and Bangka islands, Indonesia, in June 2009 and May and August 2011 as part of Aude Verwilghen's PhD. It includes the location and description of the trap lines used to capture small mammals and the captures themselves.

Site codes

RRME = RA = Rama Rama Estate (Riau_2)LIBE = LI = Libo Estate (Riau_1)BPRE = PR = Bukit Perak Estate (Bangka_1)BMSE = MS = Bukit Mas Estate (Bankga_2)

Capture codes

Code
Latin name
Common name
Remark

99

Unidentified (unknown)

NA

Unidentified (specimen no longer available: escaped, etc.)

Rasp
Rattus sp.
Rattus species

rati
Rattus tiomanicus
Malaysian wood rat, Malaysian field rat

tugl
Tupaia glis
Common teeshrew

masp
Maxomys sp
Maxomys species

cano
Callosciurus notatus
Plantain squirrel

mawh
Maxomys whiteheadi
Whitehead's spiny rat, Whitehead's Sundaic Maxomys

rata
Rattus tanezumi
Oriental house rat
syn: R.R. diardii

susp
Sundamys sp.

lesp
Leopoldamys sp.

raex
Rattus exulens
Pacific rat

masu
Maxomys surifer
Indomalayan maxomys

nicr
Niviventer cremoriventer
Sundaic arboreal Niviventer, Dark-tailed Tree Rat

sume
Sundamys muelleri
Muller's sundamys, Giant rat

mara
Maxomys rajah
Rajah spiny rat, Rajah Sundaic Maxomys

mahy
Maxomys hylomyoides
Sumatran mountain Maxomys, Sumatran spiny rat

SkullMeasurements.pdf

Figure of skull measurements published in Verwilghen et al. 2015

TrapsBaitCodes.png

Description of trap types, baits and coding.

LinesStandard.txt

This file is a table that describes the 34 'standard' traplines by which small mammal specimens have been captured. Some traplines can have  no capture. This is a point to consider when trapping success is computed joining the trapline table to the capture table. Those two tables can be joined using the field 'IDLine'. For more details about sampling design, trap types, distance between two traps, etc. please refer to the articles published using those data (see references on this web page).

IDline
 trapline ID code: digits #1-2 location ID, digits #3-4 year, digits  #5-6 month, digits #7-8 line ID. (see TrapsBaitCodes.png)

deb_long_wgs84
longitude of the trapline beginning

deb_lat_wgs84
latitude of the trapline beginning

fin_long_wgs84
longitude of the trapline end

fin_lat_wgs84
latitude of the trapline end

altitude
altitude in m

TypeTrap
Trap type (see TrapsBaitCodes.png)

DistTrap (m)
Distance between two traps

Bait
Type of bait (see TrapsBaitCodes.png)

C1
Number of trap at control 1

C2
Number of trap at control 2

C3
Number of trap at control 3

C4
Number of trap at control 4

C5
Number of trap at control 5

C6
Number of trap at control 6

C7
Number of trap at control 7

habitat
habitat type

habitat_detail
details on location

Site
see section 'Site codes' above

Remarque
remarks

LinesNonStandard.txt

This file is a table with two traplines, AD and AE, that have been mixed up. Captures have been collapsed in AD in the capture file. See the section about 'LinesStandard.txt'  above for column legends.

Indonesia_capture.txt

This file is a table that describes the 345 animals captured.  As a  table, it can be joined to the trapline table using the field 'IDline'.

Species identification, based on morphometrics and external morphology, was made using the following references: Musser et al. (1979), Musser and Newcomb (1983), Corbet and Hill (1992), Aplin et al. (2003), Wilson and Reeder (2005), Chaval (2011). Some species were identified using DNA barcoding, with species assignation using the RodentSEA reference database available at http//www.ceropath.org/barecoding_tool/rodentsea; (Clairon et al., 2010)). Nomenclature follows Wilson and Reeder (2005).

Aplin, K.P., Brown, P.B., Jacob, J., Krebs, C.J. & Singleton, G.R. (2003). Field methods for rodent studies in Asia and the Indo-Pacific. Australian Centre for International Agricultural Research: Canberra, 223 p

Chaval, Y. (2011). South East Asian Murines Field Guide. A compilation of documents for field identification. . Version 3. Document compiled for the Training Workshop "Rodent survey: from trapping to pathogen screening", 7-10/11/2011, Kasetart University, Thailand. CBGP: Montpellier, 205 p

Clairon, N., Lepicard, D., Dumas, D., Chavernac, D., Dehne, G.A., Piry, S. et al. (2010). Rodent SEA: a web service for rodent species identification in South-East Asia. Ceropath, Available at: http://www.ceropath.org/barcoding_tool/rodentsea

Corbet, G.B. & Hill, J.E. (1992). The mammals of the Indomalayan Region : a systematic review. Oxford University Press: Oxford, 488 p

Musser, G.G., Marshall, J.T. & Boeadi, J. (1979). Definition and Contents of the Sundaic Genus Maxomys (Rodentia, Muridae). Journal of Mammalogy, 60(3):592-606

Musser, G.G. & Newcomb, C. (1983). Malaysian murids and the giant rat of Sumatra. Bulletin of the American Museum of Natural History, 174:327-598

Wilson, D.E. & Reeder, D.M. (2005). Mammals species of the world. A taxonomic and geographic reference. 3rd edn. Johns Hopkins University Press: Baltimore, 2,142 pp

IDcapt
specimen ID

Labcode
lab code (internal use)

IDline
trapline ID

Captdate
date of capture

ControlNight
night of control (1, 2, 3rd, etc. visit)

SpeciesField
species identified in the field

SpeciesDNA
species identified by DNA

MaterialSampleDNA
material sampled for DNA analysis

LocationMaterialDNA
location of the material sampled for DNA analysis (CIRAD or CBGP in Montpellier or SMARTRI in Libo)

DNAsequencing
DNA sequenced (yes = 1 or no = 0)

Skull
skull collected  (yes = 1 or no = 0)

Skull condition
skull condition (ind if OK, some can be broken)

LocationSkull
location of the skull

Hair
hair collected  (yes = 1 or no = 0)

LocationHair
hair location

BodyMass
Body mass (g)

BodyLenght
Body length (mm)

TailLenght
Tail length (mm)

Hind-foot Length
Hind foot length (mm)

EarLenght
Ear length (mm)

Mammae formula
Mammae formula

Lens
Lens number taken

LocationLens
Lens location

LensNb
Lens number weighed

LensMass
Lens dry weight (mg * 10)

Sex
1 = male, 2 = female

NbEmbryos
Number of embryos

JawL1
see SkullMeasurements.pdf

JawL2
see SkullMeasurements.pdf

JawL3
see SkullMeasurements.pdf

JawL4
see SkullMeasurements.pdf

JawL5
see SkullMeasurements.pdf

SkullGSL
see SkullMeasurements.pdf

SkullIB
see SkullMeasurements.pdf

SkullLR
see SkullMeasurements.pdf

SkullCLM1-3
see SkullMeasurements.pdf

SkullLD
see SkullMeasurements.pdf

SkullBP
see SkullMeasurements.pdf

Incisorsupper
see SkullMeasurements.pdf

Incisorslower
see SkullMeasurements.pdf

LongBonefemur
see SkullMeasurements.pdf

ShortBonefemur
see SkullMeasurements.pdf

3dMolar
see SkullMeasurements.pdf

Remarks
Remarks

Dry collection
if yes, location

DNA_sequencing.txt

Table recording data on material taken for DNA sequencing and location.