Features
- Cover Type: Hard Cover with 430 pages
- Published by: Cambridge University Press
- Edition: 1st Edition September 1, 2003
- Written in: English
- ISBN 10 Number: 052180390X
- ISBN 13 Number: 978-0521803908
-
Book Dimensions:
9.8 x 6.9 x 1.2 inches
- Weighs: 2.3 pounds
Product Review
' a good buy '. Plant Systematics & Evolution 'Given the problems associated with traditional phylogenetic approaches in bacteria and many fungi, the book is a timely one, and a wide range of scientists will find much aid within. The book starts with an extremely well-written and rather welcome introduction to the basic concepts of molecular evolution The text avoids getting bogged down in the minutiae of these approaches, a good indication of the concise and clear writing that the authors employ throughout. The impression is of an extremely well-edited guide. this is a very useful introduction to the subject of phylogenetics, with chapters written by acknowledged experts in the field, and a well-thought out concept of practical sections for familiarisation with the main phylogenetic
software packages. We are sure that our copy will become increasingly well-thumbed as a reference source.' Bibliography of Systematic Mycology 'It is wide-ranging enough to be a worthwhile introduction to phylogenetic analysis, without getting lost in too much detail '. Systematic Biology
Product Review
"This is a splendid book that does what it says on the cover and presents a practical approach to phylogeny with molecules. an great tutor for undergraduate or postgraduate study, or for anyone seeking to enter the field." Microbiology Today
"The practice sections throughout the book are exceptionally well-done, making this an extremely valuable feature of this book and one that distinguishes it from the few other phylogenetic texts availablethis volume is an great resource for phylogenetic analysis for those who are both new and experienced in molecular evolutionary techniques." American Journal of Human Biology
Reader ReviewsI came across this book while doing some phylogenetic analysis and found it very useful. The first two chapters give some background information on molecular evolution and sequence databases, as well as a downloadable dataset used throughout the book. The real business starts from chapter 3--multiple sequence alignment (MSA). Problems and algorithms of MSA are briefly reviewed. Here you know how CLUSTALW and T-Coffee work. The presentation of the progressive alignment used in CLUSTALW is especially clear. However, other popular programs are not metioned, probably they are not available or not widely used at the time when the book was written. I recommend PROCONS and MUSCLE for protein alignment and DIALIGN-T for both dna and protein alignment. Check them out. Chapter 4 reviews nucleotide substitution model, concise and not much math on continuous-time Markov chain(CTMC). A chart shows the relationship between popular models including GTR, TN93, HKY85, F84, F81, K80 and JC. I like it. To know more details of CTMC of these models, however, you need to consult other books. Exercises using PHYLIP and DAMBE can be found. One someone have the sequence aligned, and genetic/evolutionary distance between them adjusted using say JC, she/he is ready to jump to the next chapter 5 -- Phylogeny Inferrence based on distance methods. Here the outdated UPGMA, mainstream NJ and Fitch-Morgoliash methods are presented by examples, effectively cleaning the fog before these ACRONYM. Bootstrapping and Jacknifing, the two methods for assessing quality of phylogeny, are briefly explained, then progress to exercise using PHYLIP. The next two chapters are maximum-likelihood with TREE-PUZZLE, and Parimony* (* means MP+ML+Distance) in PAUP*. Working on dna or protein sequences sometimes can mean a whole lot of difference, these topics are dealt in chapter 8--Phylogenetic analysis using protein sequences and chapter 9--analysis of nucleotide sequences using TREECON. If you only need to get the tree, you can stop here. The remainign chapters either deal with dN/dS, detecting recomination, or centered on particular software packages including SplitsTree,LAMARC and DAMBE(A heavily used package in this book another is PHYLIP). Overall, the book is comprehensive, well balanced between practice and theory. Though contributed by different authors, the two editors seamlessly wave these chapters into a nice book. Bravo to them! My only concern is book does not cover many widely-used programs, but we, the arduous tree constructors, can find them out by ourselves, do we?
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