Literature DB >> 24170399

MAFFT: iterative refinement and additional methods.

Kazutaka Katoh1, Daron M Standley.   

Abstract

This chapter outlines several methods implemented in the MAFFT package. MAFFT is a popular multiple sequence alignment (MSA) program with various options for the progressive method, the iterative refinement method and other methods. We first outline basic usage of MAFFT and then describe recent practical extensions, such as dot plot and adjustment of direction in DNA alignment. We also refer to MUSCLE, another high-performance MSA program.

Mesh：

Substances：

Year:  2014        PMID： 24170399     DOI： 10.1007/978-1-62703-646-7_8

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  174 in total

1.  Species-Level Identification of Actinomyces Isolates Causing Invasive Infections: Multiyear Comparison of Vitek MS (Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry) to Partial Sequencing of the 16S rRNA Gene.

Authors:  T Lynch; D Gregson; D L Church
Journal:  J Clin Microbiol       Date:  2016-01-06       Impact factor: 5.948

2.  A conserved cell division protein directly regulates FtsZ dynamics in filamentous and unicellular actinobacteria.

Authors:  Félix Ramos-León; Matthew J Bush; Joseph W Sallmen; Govind Chandra; Jake Richardson; Kim C Findlay; Joseph R McCormick; Susan Schlimpert
Journal:  Elife       Date:  2021-03-17       Impact factor: 8.140

3.  Repeated horizontal gene transfer of GALactose metabolism genes violates Dollo's law of irreversible loss.

Authors:  Max A B Haase; Jacek Kominek; Dana A Opulente; Xing-Xing Shen; Abigail L LaBella; Xiaofan Zhou; Jeremy DeVirgilio; Amanda Beth Hulfachor; Cletus P Kurtzman; Antonis Rokas; Chris Todd Hittinger
Journal:  Genetics       Date:  2021-02-09       Impact factor: 4.562

4.  Multilayered horizontal operon transfers from bacteria reconstruct a thiamine salvage pathway in yeasts.

Authors:  Carla Gonçalves; Paula Gonçalves
Journal:  Proc Natl Acad Sci U S A       Date:  2019-10-14       Impact factor: 11.205

5.  Support from Phylogenomic Networks and Subspecies Signatures for Separation of Mycobacterium massiliense from Mycobacterium bolletii.

Authors:  Joon Liang Tan; Yun Fong Ngeow; Siew Woh Choo
Journal:  J Clin Microbiol       Date:  2015-07-08       Impact factor: 5.948

6.  Specimen-based analysis of morphology and the environment in ecologically dominant grasses: the power of the herbarium.

Authors:  Christine A McAllister; Michael R McKain; Mao Li; Bess Bookout; Elizabeth A Kellogg
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2018-11-19       Impact factor: 6.237

7.  Identification of Exo1-Msh2 interaction motifs in DNA mismatch repair and new Msh2-binding partners.

Authors:  Eva M Goellner; Christopher D Putnam; William J Graham; Christine M Rahal; Bin-Zhong Li; Richard D Kolodner
Journal:  Nat Struct Mol Biol       Date:  2018-07-30       Impact factor: 15.369

8.  MAFFT multiple sequence alignment software version 7: improvements in performance and usability.

Authors:  Kazutaka Katoh; Daron M Standley
Journal:  Mol Biol Evol       Date:  2013-01-16       Impact factor: 16.240

9.  The Draft Genome of a Flat Peach (Prunus persica L. cv. '124 Pan') Provides Insights into Its Good Fruit Flavor Traits.

Authors:  Aidi Zhang; Hui Zhou; Xiaohan Jiang; Yuepeng Han; Xiujun Zhang
Journal:  Plants (Basel)       Date:  2021-03-12

10.  Arsenophonus and Sodalis Symbionts in Louse Flies: an Analogy to the Wigglesworthia and Sodalis System in Tsetse Flies.

Authors:  Eva Nováková; Filip Husník; Eva Šochová; Václav Hypša
Journal:  Appl Environ Microbiol       Date:  2015-07-06       Impact factor: 4.792
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.