Trainings

Organized by:  Prof. Sathaporn Jittapalapong, Dr. Marc Desquesnes, Dr. Serge Morand GREASE assistant: Jintana Thanarotewatana   Supported by:  ANR CERoPath (www.ceropath.org) and GREASE network (www.grease-network.com)   Venue:  Kasetsart University (Faculty of Veterinary Sciences), Bangkok, Thailand   Dates:  15th  – 18th  May 2012

Teachers at the training:  Dr. Frédéric Bordes (Montpellier U, France), Kittipong Chaisiri (Mahidol U), Yannick Chaval (INRA, France), Dr. Jean-François Cosson (INRA, France), Dr. Marc Desquesnes (CIRAD, Kasetsart U), Dr. Heikki Henttonen (Metla, Helsinki), Dr. Vincent Herbreteau (IRD, France), Dr. Stéphane Herder (IRD, Kasetsart U), Prof. Sathaporn Jittapalapong (Kasetsart U), Dr. Michael Kosoy (US CDC, Fort-Collins), Dr. Kriangkrai Lerdthusnee (Chulalongkorn U), Serge Morand (CNRS), Pornpan Pumhom (Kasetsart U), Dr. Alexis Ribas (Barcelona U, Spain), Dr. Sungsit Sungvornyothin (Mahidol U)

Speakers at the WS:  Prof. Boris Krasnov (University Ben Gouriou, Israel), Prof. Yupin Suputtamongkol (Mahidol University), Prof. Saipin Suputtamongkol (Thammasat University), Dr. Ratree Takhampunya (USAMC-AFRIMS), Alice Latinne (University of Liege, Belgium), Dr. Noppadon Kitana (Chulalongkorn University), Dr. Hsi-Chieh Wang (CDC Taiwan), Dr. Hsuan-Wien Chen (Academia Sinica, Taipei), Prof. Liang-Kong Lin (Tunghai University), Prof. Tan Boon Huan (DSO Singapore), Dr. Michael Kosoy (US CDC, Fort-Collins), Dr. Sumalee Boonmar (CDC, Thailand), Dr. Stéphane Herder (IRD, Kasetsart U)

Public:  students (PhD, MsSc), faculty staff, researchers

Maximum 30 participants for the training days

by invitation  to projects’ partners: Institut Pasteur in Cambodia, Rodolphe Merieux Laboratory in Phnom Penh, NAFRI in Laos, DSO-Singapore, Mahidol U, Chulalongkorn U, Kasetsart U, Maha Sarakham U, Khon Kaen U, Chiang Mai U, Songkhla U, AFRIMS, CDC Taiwan, CDC China, CDC Thailand, CDC Fort Collins US, Academia Sinica (Taiwan), Kunming U (Yunnan, China), Ben Gourion U (Israel), Welcome Trust Vietnam, Sarawak University (Malaysia).

Fees:  no

Registration: mail to serge.morand@univ-montp2.fr and fvetspj@hotmail.com

Information : mail to jintanatha@gmail.com

DETAILED PROGRAM:

201205 Rodent Training Program

1^st  day: 15^th  May Workhsop

8h00 Registration

8h30 Opening

• Welcoming speech: Prof. Sathaporn Jittapalapong, Kasetsart University
• Message from the Dean of the Veterinary Faculty of Kasetsart University
• “Presentation of GREASE network” Dr. Aurélie, CIRAD, Kasetsart University
• “CERoPath project” Dr. Serge Morand, CNRS-IRD-University of Montpellier & CIRAD, France

9h00 Opening lecture

• “Biology and Ecology of Rodent-borne Diseases” Dr. Michael Kosoy, US CDC

9h30 Session 1. Landscape and rodent distribution

•  “Phylogeography and evolutionary history of Leopoldamys neilli, a Murinae rodent endemic to limestone karsts, in Thailand”, Alice Latinne, University of Liège, Belgium
•  “Habitat suitability modeling of murine rodents in South-East Asia: use of high resolution data at a local scale”, Dr. Vincent Herbreteau IRD, Espace-Dev, Montpellier

10h30 Coffee break

11h00 Session 3 Rodents and disease transmission

• “Ecological characteristics of a vector as indicators of the ability to transmit pathogens: A story of fleas and plague”,  Prof. Boris Krasnov, University Ben Gourion, Israel
• “Ecology of bartonellosis”, Dr. Michael Kosoy, CDC Fort Collins, USA
• “Leptospirosis: Man and Rodents”, Prof. Yupin Suputtamongkol, Mahidol University, and, Prof. Saipin Suputtamongkol, Thammasat University, Thailand
• “Murine Typhus: An Overlooked and Forgotten Flea-Borne Rickettsial/Zoonotic Disease in Thailand", Dr. Kriangkrai Lerdthusnee
• “The many faces of Puumala hantavirus: from virus genes to biomes” Dr. Heikki Henttonen

12h30 Lunch

13h30 Session 3. Rodents and disease transmission

• "Rodent-borne disease surveillance in Thailand with a focus on scrub typhus disease in reservoir hosts and vectors", Dr. Ratree Takhampunya, USAMC-AFRIMS, Thailand
• “Surveillance of rickettsial infections in rodents and their ectoparasites in Taiwan” Dr. Hsi-Chieh Wang, CDC, Taiwan
• “Hantavirus in Singapore and Cambodia“ Prof. Tan Boon Huan, DSO and National Singapore University, Singapore
•  “Wild animals are reservoirs of human trypanosomes in Cameroon”, Dr. Stéphane Herder, IRD- Kasetsart U. & Marc Desquesnes, CIRAD-Kasertsart U
• Atypical Human Infections by Animal Trypanosomes Marc Desquesnes Dr. Stéphane Herder & Sathaporn Jittapalapong
• “The applications of network analysis on parasite diversity and transmission” Dr. Hsuan-Wien Chen, Biodiversity Research Centre, Academia Sinica, Taipei, Taiwan.

15h30 Coffee break

16h00 Round Table “Future avenues and challenges in research and control of rodent-borne diseases” with Dr. Hsuan-Wien Chen, Prof. Tan Boon Huan, Prof. Sathaporn Jittapalapong, Dr. Michael Kosoy, Prof. Yupin Suputtamongkol, Prof. Saipin Suputtamongkol, Dr. Ratree Takhampunya, Dr. Hsi-Chieh Wang

17h00 Cloture

2^nd  day: 16^th  May: Introduction to training

9h30 Rodents

• “Presentation of the Rodent protocols’ book (given to each participant)”: Dr. Vincent Herbreteau
• “Rodents in Southeast Asia: their diversity and ecology”, V Herbreteau, Dr. Jean-François Cosson, Alice Latinne
• “Rodent identification: from morphometry to molecules”, Yannick Chaval

11h00 Coffee break

11h30 Rodents

• “Rodent trappings: what design for which purpose?” J-F Cosson
• “Genetic investigation: phylogeny, phylogeography and population genetics” J.F. Cosson, Alice Latinne
• “GPS use in the field and online mapping with Google Map” V. Herbreteau

12h30 Lunch

13h30 Parasites

• “Helminths of Southeast Asian rodents including zoonotic worms”, Kittipong Chaisiri, Dr. Alexis Ribas & Dr. Heikki Henttonen
• “Chigger mites, lice and occasional mites” Dr. Sungsit Sungvornyothin

15h00 Coffee break

15h30 Parasites

• “Bacterial pathogens in rodents”, Dr. Michael Kosoy
• “Blood and tissue protozoan parasites”, Prof. Sathaporn, Dr. Marc Desquesnes, Dr. Stéphane Herder

17h00: Trapping session

3^nd  and 4^th  days: 17^th  – 18^th  May (practical training)

7h30 Rodent trapping

9h00-12h00 Laboratory class

13h00-17h00 Laboratory class

• Rodent identification, anatomy, anesthesia, dissection, biohazard and security
  • Specimen preparation

• Parasitological investigation (dissection, observation, coprology, serology)
  • Internal investigation: endoparasites
  • External investigation: ectoparasites
  • Parasitological investigation and serology and microscopy: blood parasites
  • Parasitological investigation and cropology and microscopy.

"Introduction to morphometrics: from measurements to biological shape analyses "   Organized by:  Julien Claude, ISEM, University of Montpellier II, France   Venue:  Mahasarakham University, Thailand   Dates:  July 20th-22nd 2011

Picture gallery

Rationale:  
 Morphometrics is the analysis of shape and size variation. In biology, ecology, or in paleontology, it is often necessary to understand phenotypic variation in a quantitative way for relating phenotypes to evolutionary forces or to ecological factors. Analysing variation of biological objects is often necessary for a wide array of studies concerning taxonomy, evolutionary systematics, eco-physiology, developmental biology, ecology,..., etc. Since the beginning of quantitative biology, an array of statistical methods dedicated to the study of shape variation have been developped by statisticians and biologists leading to the new discipline of quantitative shape analysis.

This workshop is therefore intended for scientists, graduate and phD students who are in needs to analyse shape variation among biological objects. During that workshop, scientists and students will directly practice morphometric analyses and work on original data in the R software and environment. The program start with an introduction to traditional analyses with simple concepts (e.g. size, and shape, allometries) and simple techniques (analysis of shape ratios)  and ends with the most up to date techniques such as Procrustes analyses and elliptic fourier analysies. Associated methods will cover explorative and descriptive statistics (bivariate plots, box plot, PCA)  to exploratory methods (linear models, linear discriminant analysis, MANOVA), but also specific methods of geometric morphometrics (e.g., TPS).

Download oral presentations here:

Claude_morphometrics1_2011

Claude_morphometrics2_2011

Claude_morphometrics3_2011

Download R codes and datasets here:

201107-Morphometrics_data

Schedule:  
 
July 20th:

9h-12h: introduction:
 - why measuring morphology of living things ?
 - How getting morphometric measurements ?
 - Which software to use: introduction to the R environment
 
14h-17h.
 - analysis of traditionnal data sets
 * sex and shape size dimorphism in crabs
 * the notion of allometry
 * introduction to log-shape ratio
 * analysis of measurement for systematics: the Iris case and multivariate analyses: principal component analysis, manova, linear discriminant analysis.

July 21st

9 h -12h
 Introduction to geometric morphometrics
 * advantage of geometric morphometrics on traditionnal morphometrics
 * the procrustes method
 * analysis of primate data sets
 
14h-17h
 * analysis of outlines and introduction to elliptic fourier analysis
 * analysis of rodent data sets
 
July 22nd

9h-12h
 * interpolating shape variation using transformation grids
 * developmental data and geometric morphometrics
 * multivariate allometry
 
14h-17h.
 * fluctuating asymmetry and related topics
 * Analysis of biological data in a phylogenetic context

 
Prerequisites:  
 - knowledge of basic statistics (descriptive and inductive)
 - suggested readings "R for beginners" from E. Paradis (cran.r-project.org/doc/contrib/Paradis-rdebuts_en.pdf)
 

Further readings:
 http://www.r-project.org/ 
 http://www.stat.umn.edu/HELP/r.html 

Contacts : Julien Claude, Chantima Piyapong.

Organized by: Vincent Herbreteau and Annelise Tran

(from Cirad, at Maison de la télédétection, Montpellier (French Remote Sensing Institute))

Venue:  Institut Mérieux, Vientiane, Lao P.D.R.

Dates: November, 11^th  2010

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ORAL PRESENTATIONS:

1. Introduction to spatial analysis.
   20101111-01-Intro_Spatial_GIS - Connexion
2. Applications of GIS for health studies.
   20101111-02-Applications_GIS_Health - Connexion
3. Projections and coordinate systems.
   20101111-03-Projections - Connexion
4. Global Positioning System.
   20101111-04-GPS - Connexion
5. Tools for Google Earth.
   20101111-05-GoogleEarth_tools - Connexion

PRACTICAL EXERCISES:

Introduction to free tools suitable for research: Quantum GIS (qGIS): http://www.qgis.org/en.html Batchgeo for Google Map and Google Earth applications: http://www.batchgeo.com/en   20101111-Tutorial_for_exercises - Connexion

Download all the GIS training documents (presentations + data)

For any inquiries regarding this GIS training, please contact Vincent Herbreteau