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Data released on May 18, 2013

Quantitative proteomics and transcriptomics data from the anaerobic thermophilic eubacterium Thermoanaerobacter tengcongensis

Bai, X; Chen, Z; Guo, J; Lin, L; Lin, Z; Liu, S; Sun, Y; Tang, Q; Tong, W; Wang, Q; Wen, B; Zhao, J (2013): Quantitative proteomics and transcriptomics data from the anaerobic thermophilic eubacterium Thermoanaerobacter tengcongensis GigaScience Database. RIS BibTeX Text

Thermoanaerobacter tengcongensis (T. tengcongensis) is a thermophilic eubacterium isolated from Tengchong, China. It is an anaerobic, Gram-negative, rod-shaped bacterium, able to survive in temperatures ranging from 50 to 80 °C. The genome sequence of T. tengcongensis was decoded in 2001, comprising 2.69 Mb in length and containing 2,588 predicted proteins. Previous studies of the proteomic response to growth temperature changes and thermo-survival of T. tengcongensis have been carried out with 2DE and MALDI-TOF/TOF MS. However, due to limitations of the technique, only few proteins with semi-quantitative estimation for the differential 2DE spots responsive to temperature changes are obtained. An improved iTRAQ-based quantification proteomics protocol has been developed, and using this method data produced to analyze the T. tengcongensis cultured at four temperatures: 55, 65, 75, and 80 oC. In order to obtain reproducible data, two biological replicates and multiple technical replicates (four times for the first sample preparation and three times for the second one) were carried out. Using the iTRAQ labeled sample analyzing procedure of high-pH RP HPLC coupled with LTQ Orbitrap Velos MS, 732,234 MS/MS spectra in total were obtained. The raw data were searched by Mascot 2.3, approximately 23% of the spectra were matched to peptides (FDR<0.01), while 0.5% less of the identified peptides were absent with the reporter tags. In total, 1,589 proteins elicited from 13,223 unique peptides, were identified with quantitative information, which covered 61.4% of the 2,588 predicted proteins of the T. tengcongensis genome. To study the abundance correlation between protein and mRNA, RNA-seq was carried out to study the transcription of the different cultured samples. Using Illumina HiSeqTM 2000 sequencing and the analyzing the raw data using SOAP2, the RNA-seq data covered approximately 97% (2501/2588) of the predicted genes, with more than two reads for each gene. These two datasets help show that the temperature-dependent responses of transcription and translation can happen in synchrony.

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Read the peer-reviewed publication(s):

Chen, Z., Wen, B., Wang, Q., Tong, W., Guo, J., Bai, X., … Liu, S. (2013). Quantitative Proteomics Reveals the Temperature-Dependent Proteins Encoded by a Series of Cluster Genes inThermoanaerobacter Tengcongensis. Molecular & Cellular Proteomics, 12(8), 2266–2277. doi:10.1074/mcp.m112.025817 (PubMed: 23665590)

Accessions (data included in GigaDB):

ProteomeXchange: PXD000264

Transcriptomic, Proteomic

Samples: Table Settings


Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
FourSamplePool1273068Thermoanaerobacter tengcongensis MB4 Thermoanaerobacter tengcongensis MB4 Pooling details:Four sample pooling(55-iTRAQ 114,65-iTRAQ 115,75-iTRAQ 116,80-iTRAQ 117), biological replicate 1
FourSamplePool2273068Thermoanaerobacter tengcongensis MB4 Thermoanaerobacter tengcongensis MB4 Pooling details:Four sample pooling(55-iTRAQ 113,65-iTRAQ 118,75-iTRAQ 119,80-iTRAQ 121), biological replicate 2
SAMN02144323273068Thermoanaerobacter tengcongensis MB4 Thermoanaerobacter tengcongensis MB4 Culture temperature:55
SAMN02144324273068Thermoanaerobacter tengcongensis MB4 Thermoanaerobacter tengcongensis MB4 Culture temperature:65
SAMN02144325273068Thermoanaerobacter tengcongensis MB4 Thermoanaerobacter tengcongensis MB4 Culture temperature:75
SAMN02144326273068Thermoanaerobacter tengcongensis MB4 Thermoanaerobacter tengcongensis MB4 Culture temperature:80
Displaying 1-6 of 6 Sample(s).

Files: (FTP site) Table Settings


File Description
Sample ID
Data Type
File Format
Release Date
Download Link
File Attributes

File NameSample IDData TypeFile FormatSizeRelease Date 
FourSamplePool1Mass Spectrometry dataRAW466.21 MB2013-05-18
FourSamplePool1Mass Spectrometry dataRAW478.85 MB2013-05-18
FourSamplePool1Mass Spectrometry dataRAW481.83 MB2013-05-18
FourSamplePool1Mass Spectrometry dataRAW492.88 MB2013-05-18
FourSamplePool1Mass Spectrometry dataRAW494.8 MB2013-05-18
FourSamplePool1Mass Spectrometry dataRAW477.66 MB2013-05-18
FourSamplePool1Mass Spectrometry dataRAW506.9 MB2013-05-18
FourSamplePool1Mass Spectrometry dataRAW540.73 MB2013-05-18
FourSamplePool1Mass Spectrometry dataRAW523.56 MB2013-05-18
FourSamplePool1Mass Spectrometry dataRAW519.38 MB2013-05-18
Displaying 1-10 of 93 File(s).

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