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Science, research, biology

By vojta , 24 August 2015

Mallomonas alpestrina sp. nov. (Synurales, Chrysophyceae, Stramenopiles) and its spineless relatives—Mallomonas alata group

In this paper, we define the Mallomonas alata group and describe M. alpestrina sp. nov. from an oligotrophic high mountain glacial lake on the slopes of Haba Xue Shan (Haba Snow Mountain), China. The Mallomonas alata group is excluded from the M. pumilio group primarily based on the approximately triangular shape of the collar scales, the small hook-like protruded dome, and one considerably broader anterior flange of the body scale. We extend previous research on small species from the section Torquatae with reticulated scale-shield pattern.

Články
Taxonomy
Science, research, biology
By vojta , 13 April 2015

Microsatellite variation, sexual reproduction and taxonomic revision of Taraxacum sect. Dioszegia: relationships at a large spatial scale

Taraxacum serotinumThe coexistence of agamospermy and sexuality characterizes most of the ~60 sections of the genus Taraxacum. Section Dioszegia, comprising T. serotinum and its allies, are an exception because only sexuals are reported for all the members of this group.

Články
Institute of Botany, Czech Academy of Sciences
Phylogeny
Phylogeography
Population genetics
Taraxacum
Taxonomy
Science, research, biology
By vojta , 8 December 2014

Course of work with molecular data in R 2015

Since academic year 2015/16 is the course scheduled in SIS as MB120C16(link is external).

Články
Phylogeny
Phylogeography
Population genetics
Faculty of Science, Charles University
R
Taxonomy
Science, research, biology
Teaching
By vojta , 8 December 2014

Course of work in Linux command line not only for MetaCentrum 2015

Since academic year 2015/16 is the course scheduled in SIS as MB120C17(link is external).

Články
Linux (and another software)
openSUSE
Faculty of Science, Charles University
Science, research, biology
Teaching
By vojta , 8 October 2014

Structure, R and Linux

Structure(link is external) is very popular software for revealing population structure. Here I describe easy workflow how to run independent runs of Structure in parallel to speed up whole process using statistical software R(link is external) and how to facilitate use of CLUMPP(link is external) and distruct(link is external) with easy BASH scripts.

Články
Linux (and another software)
Population genetics
R
Science, research, biology
By vojta , 1 July 2014

Arlequin and R under Linux

Arlequin(link is external) is very popular tool for population genetics and in recent version (3.5) it has version running on Linux (arlecore, only computational core without GUI) as well as possibility to parse output using R statistical language(link is external). Those two features are described only briefly in official manual. I faced some issues when running Arlequin on Linux and parsing output using R. I'm describing here my solutions in case someone else would hava similar needs and problems.

Články
Linux (and another software)
Population genetics
Faculty of Science, Charles University
R
Science, research, biology
By vojta , 8 October 2009

Master thesis Phylogeography and dispersal of Nuphar lutea

Phylogeographical studies of aquatic plants are relatively rare, although river corridors are amazing study system. There are many questions about dispersal within river catchment and between different river basins.

Články
Phylogeography
Linux (and another software)
Population genetics
Faculty of Science, Charles University
Nuphar lutea
Science, research, biology
By vojta , 7 May 2008

Conferention Plant Population Biology 2008

May 1 to 3 2008 I was on conferention Plant Population Biology for the coming decade(link is external) (21th Annual Conference of the Plant Population Biology Section of the Ecological Society of Germany, Switzerland and Austria (GfÖ), Organized by the Department of Population Biology, Musée national d'histoire naturelle(link is external)). I presented my poster about preliminary result of phylogeography of Nuphar lutea (yellow water lily) in Czechia.

Články
Ecology
Phylogeography
Opinions
Population genetics
Faculty of Science, Charles University
Nuphar lutea
Science, research, biology
By vojta , 30 May 2007

Bachelor thesis

In my bachelor thesis I present temporal pieces of knowledge on phytogeography, and especially molecular phylogeography of water clonal plants and possibilities of their dispersion. Plenty of questions about history, dispersal, relationship and population structure we can not answer without molecular technologies at all. Another very important components influencing dispersal of plants and animals are their ecology and physiology.

Články
Ecology
Linux (and another software)
Population genetics
Faculty of Science, Charles University
Nuphar lutea
Science, research, biology

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KDE - K Desktop Environment(link is external)

openSUSE GNU/Linux(link is external)

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