DOI: 10.5281/zenodo.14261275
title: Small mammal surveys in Sumatra and  Bangka islands, Indonesia (2009 & 2011)

description: 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. Specimens are deposited at the Centre de Biologie pour la Gestion des Population, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France - “CBGP - Small mammal Collection”, https://doi.org/10.15454/WWNUPO

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.

 
description: Financial support from the author's institutions ; research permits : Surat Izin Penelitian 0131/SIP/FRP/V/2011 ; Surat Izin Penelitian 23/EXT/SIP/FRP/SM/III/2012 ; TKPIPA 05/TKPIPA/FRP/SM/V/2010 ; TKPIPA 2/TKPIPA/FRP/SM/V/2012