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E-raamat: Computational Methods For Understanding Bacterial And Archaeal Genomes

Edited by (Univ Of Georgia, Usa), Edited by (Univ Of Connecticut, Usa)
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Over 500 prokaryotic genomes have been sequenced to date, and thousands more have been planned for the next few years. While these genomic sequence data provide unprecedented opportunities for biologists to study the world of prokaryotes, they also raise extremely challenging issues such as how to decode the rich information encoded in these genomes. This comprehensive volume includes a collection of cohesively written chapters on prokaryotic genomes, their organization and evolution, the information they encode, and the computational approaches needed to derive such information. A comparative view of bacterial and archaeal genomes, and how information is encoded differently in them, is also presented. Combining theoretical discussions and computational techniques, the book serves as a valuable introductory textbook for graduate-level microbial genomics and informatics courses.
Preface v
List of Contributors
xiii
Acknowledgments xix
General Characteristics of Prokaryotic Genomes
1(38)
Jan Mrazek
Anne O. Summers
Genes in Prokaryotic Genomes and Their Computational Prediction
39(36)
Rajeev K. Azad
Evolution of the Genetic Code: Computational Methods and Inferences
75(24)
Greg Fournier
Dynamics of Prokaryotic Genome Evolution
99(14)
Pascal Lapierre
Mobile Genetic Elements and Their Prediction
113(24)
Morgan G.I. Langille
Fengfeng Zhou
Amber Fedynak
William W.L. Hsiao
Ying Xu
Fiona S.L. Brinkman
Horizontal Gene Transfer: Its Detection and Role in Microbial Evolution
137(16)
J. Peter Gogarten
Olga Zhaxybayeva
Genome Reduction During Prokaryotic Evolution
153(32)
Francisco J. Silva
Amparo Latorre
Comparative Mechanisms for Transcription and Regulatory Signals in Archaea and Bacteria
185(24)
Agustino Martinez-Antonio
Julio Collado-Vides
Computational Techniques for Orthologous Gene Prediction in Prokaryotes
209(24)
Maria Poptsova
Computational Elucidation of Operons and Uber-operons
233(26)
Phuongan Dam
Fenglou Mao
Dongsheng Che
Ping Wan
Thao Tran
Guojaun Li
Ying Xu
Prediction of Regulons Through Comparative Genome Analyses
259(22)
Zhengchang Su
Guojun Li
Ying Xu
Prediction of Biological Pathways Through Data Mining and Information Fusion
281(34)
Fenglou Mao
Phuongan Dam
Hongwei Wu
I-Chun Chou
Eberhard Voit
Ying Xu
Microbial Pathway Models
315(30)
Siren R. Veflingstad
Phuongan Dam
Ying Xu
Eberhard O. Voit
Metagenomics
345(52)
Kayo Arima
John Wooley
References 397(70)
Index 467