Proteomics application exercise of the Swiss Proteomics Society: report of the SPS'02 session.
After the success of the mass spectrometry (MS) round table that was held at the first Swiss Proteomics Society congress (SPS'01) in Geneva, the SPS has organized a proteomics application exercise and allocated a full session at the SPS'02 congress. The main objective was to encourage the exchange of expertise in protein identification, with a focus on the use of mass spectrometry, and to create a bridge between the users' questions and the instrument providers' solutions. Two samples were sent to fifteen interested labs, including academic groups and MS hardware providers. Participants were asked to identify and partially characterize the samples. They consisted of a complex mixture of peptide/proteins (sample A) and an almost pure recombinant peptide carrying post-translational modifications (sample B). Sample A was an extract of snake venom from the species Bothrops jararaca. Sample B was a recombinant and modified peptide derived from the shrimp Penaeus vannamei penaeidin 3a. The eight labs that returned results reported the use of a wide range of MS instrumentation and techniques. They mentioned a variety of time and manpower allocations. The origin of sample A was generally identified together with a number of database protein entries. The difficulty of the sample identification lay in the incomplete knowledge of the Bothrops species genome sequence and is discussed. Sample B was generally and correctly identified as penaeidin. However, only one group reported the full primary structure. Interestingly, the approaches were again varied and are discussed in the text.
Binz
Pierre-Alain
PA
Swiss Institute of Bioinformatics (SIB), Centre Médical Universitaire, 1 Michel-Servet, CH-1211 Geneva 4, Switzerland.
Abdi
Fadi
F
Affolter
Michael
M
Allard
Laure
L
Barblan
Jachen
J
Bhardwaj
Sanjeev
S
Bienvenut
Willy V
WV
Bulet
Philippe
P
Burgess
Jennifer
J
Carrette
Odile
O
Corthals
Garry
G
Delalande
François
F
Diemer
Hélène
H
Favreau
Philippe
P
Giuliano
Elia
E
Gueguen
Yannick
Y
Guillaume
Elisabeth
E
Hahner
Stephanie
S
Man
Petr
P
Michalet
Sophie
S
Neri
Dario
D
Noukakis
Dimitrios
D
Palagi
Patricia
P
Paroutaud
Pierre
P
Pimenta
Daniel Carvalho
DC
Quadroni
Manfredo
M
Resemann
Anja
A
Richert
Sophie
S
Rybak
Jascha
J
Sanchez
Jean-Charles
JC
Scherl
Alexander
A
Scheurer
Simone
S
Schweiger Hufnagel
Ulrike
U
Siethoff
Christoph
C
Suckau
Detlev
D
van Dorsselaer
Alain
A
Wagner Redeker
Winfried
W
Walter
Nadia
N
Stöcklin
Reto
R
D013058:Mass Spectrometry; D040901:Proteomics