Characterization and Comparison of the Tissue-Related Modules in Human and Mouse


Autoria(s): Yang, Ruolin; Su, Bing
Data(s)

2010

Resumo

Background: Due to the advances of high throughput technology and data-collection approaches, we are now in an unprecedented position to understand the evolution of organisms. Great efforts have characterized many individual genes responsible for the interspecies divergence, yet little is known about the genome-wide divergence at a higher level. Modules, serving as the building blocks and operational units of biological systems, provide more information than individual genes. Hence, the comparative analysis between species at the module level would shed more light on the mechanisms underlying the evolution of organisms than the traditional comparative genomics approaches. Results: We systematically identified the tissue-related modules using the iterative signature algorithm (ISA), and we detected 52 and 65 modules in the human and mouse genomes, respectively. The gene expression patterns indicate that all of these predicted modules have a high possibility of serving as real biological modules. In addition, we defined a novel quantity, "total constraint intensity,'' a proxy of multiple constraints (of co-regulated genes and tissues where the co-regulation occurs) on the evolution of genes in module context. We demonstrate that the evolutionary rate of a gene is negatively correlated with its total constraint intensity. Furthermore, there are modules coding the same essential biological processes, while their gene contents have diverged extensively between human and mouse. Conclusions: Our results suggest that unlike the composition of module, which exhibits a great difference between human and mouse, the functional organization of the corresponding modules may evolve in a more conservative manner. Most importantly, our findings imply that similar biological processes can be carried out by different sets of genes from human and mouse, therefore, the functional data of individual genes from mouse may not apply to human in certain occasions.

We are grateful to all the voluntary donors of DNA samples in this study. We thank Tatiana M Karafet, Li Hui, Sanghamitra Sengupta and Brigitte Pakendorf for providing their published STR data of Hg C. We thank Pingping Tan and Hui Zhang for their technical assistance. This study was supported by grants from the National 973 project of China (2006CB701506, 2007CB947701), the Chinese Academy of Sciences (KSCX1-YW-R-34), the National Natural Science Foundation of China (30413242, 30525028, 30700445, 30630013 and 30771181), and the Natural Science Foundation of Yunnan Province of China (2007C100M). We also thank the anonymous reviewers for their insightful comments and suggestions.

Identificador

http://159.226.149.42/handle/152453/2201

http://www.irgrid.ac.cn/handle/1471x/46503

Direitos

Characterization and Comparison of the Tissue-Related Modules in Human and Mouse

Fonte

Yang, Ruolin; Su, Bing.Characterization and Comparison of the Tissue-Related Modules in Human and Mouse,5,,(SCI-E ):We are grateful to all the voluntary donors of DNA samples in this study. We thank Tatiana M Karafet, Li Hui, Sanghamitra Sengupta and Brigitte Pakendorf for providing their published STR data of Hg C. We thank Pingping Tan and Hui Zhang for their technical assistance. This study was supported by grants from the National 973 project of China (2006CB701506, 2007CB947701), the Chinese Academy of Sciences (KSCX1-YW-R-34), the National Natural Science Foundation of China (30413242, 30525028, 30700445, 30630013 and 30771181), and the Natural Science Foundation of Yunnan Province of China (2007C100M). We also thank the anonymous reviewers for their insightful comments and suggestions.

Palavras-Chave #Biology; Multidisciplinary Sciences
Tipo

期刊论文