تکامل میکروبی محیطی - روش ها و پروتکل ها Environmental Microbial Evolution_ Methods and Protocols

فهرست مطالب: Preface...................v Contributors................... . ix PART I EVOLUTIONARY TIMESCALES 1 Dating Microbial Evolution with MCMCtree........ . . 3 Mario dos Reis 2 A Computational Protocol for Dating the Evolution of Cyanobacteria.. . 23 Hao Zhang, Sishuo Wang, and Haiwei Luo 3 Standard Candles for Dating Microbial Lineages........41 Gregory P. Fournier, Chris W. Parsons, Elise M. Cutts, and Erik Tamre 4 Relative Time Inference Using Lateral Gene Transfers...... . . 75 Adria´n A. Davı´n, Dominik Schrempf, Tom A. Williams, Philip Hugenholtz, and Gergely J. Szo ¨llo˝si 5 Estimating the Divergence Times of Alphaproteobacteria Based on Mitochondrial Endosymbiosis and Eukaryotic Fossils.... . 95 Sishuo Wang and Haiwei Luo PART II DEEP PHYLOGENY 6 Phylogenetic Analysis That Models Compositional Heterogeneity over the Tree................ . . . 119 Peter G. Foster 7 Assembling a Reference Phylogenomic Tree of Bacteria and Archaea by Summarizing Many Gene Phylogenies.........137 Qiyun Zhu and Siavash Mirarab 8 Testing Phylogenetic Stability with Variable Taxon Sampling.... . . . 167 Christopher Lowell Edward Powell and Fabia Ursula Battistuzzi 9 Rooting Species Trees Using Gene Tree-Species Tree Reconciliation.. . . . 189 Brogan J. Harris, Paul O. Sheridan, Adria´n A. Davı´n, Ce´ cile Gubry-Rangin, Gergely J. Szo ¨llo˝si, and Tom A. Williams 10 Reconstructing Gene Gains and Losses with BadiRate....... . 213 Pablo Librado and Julio Rozas 11 Deciphering Microbial Gene Family Evolution Using Duplication-Transfer-Loss Reconciliation and RANGER-DTL.. . . 233 Mukul S. Bansal vii viii Contents PART III TRAIT EVOLUTION 12 Ancestral State Reconstruction Using BayesTraits....... . . . . . 255 Andrew Meade and Mark Pagel 13 An Integrated Method to Reconstruct Ancient Proteins...... 267 Amanda K. Garcia, Evrim Fer, Cathryn Sephus, and Betul Kacar 14 Methodologies for Microbial Ancestral Sequence Reconstruction... . . . . . 283 Miguel Arenas 15 Reconstruction of State-Dependent Diversification: Integrating Phenotypic Traits into Molecular Phylogenies........ . . 305 Leonel Herrera-Alsina, Poppy Mynard, I. Made Sudiana, Berry Juliandi, Justin M. J. Travis, and Ce´cile Gubry-Rangin 16 Lifestyle Evolution Analysis by Binary-State Speciation and Extinction (BiSSE) Model............ . 327 Takao K. Suzuki, Motomu Matsui, Sira Sriswasdi, and Wataru Iwasaki 17 Assessing a Role of Genetic Drift for Deep-Time Evolutionary Events... . 343 Xiaoyuan Feng, Hao Zhang, Jijun Tang, and Haiwei Luo Index.................... 361   مشخصات فایل
عنوان (Title):	Environmental Microbial Evolution_ Methods and Protocols
نام فایل (File name):	970-www.GeneProtocols.ir-Environmental Microbial Evolution_ Methods and Protocols-Humana Press (2022).pdf
عنوان فارسی (Title in Persian):	تکامل میکروبی محیطی - روش ها و پروتکل ها
ایجاد کننده:	Haiwei Luo
زبان (Language):	انگلیسی English
سال انتشار:	2022
شابک ISBN:	9781071626900
نوع سند (Doc. type):	کتاب
فرمت (File extention):	PDF
حجم فایل (File size):	12.6 مگابایت
تعداد صفحات (Book length in pages):	365

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