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Phylogenetic analysis of the Kinesin superfamily from physcomitrella.

Shen Z, Collatos AR, Bibeau JP, Furt F, Vidali L - Front Plant Sci (2012)

Bottom Line: We found a remarkable conservation of families and subfamily classes with Arabidopsis, which is important for future comparative analysis of function.Some of the families, such as kinesins 14s are composed of fewer members in moss, while other families, such as the kinesin 12s are greatly expanded.To improve the comparison between species, and to simplify communication between research groups, we propose a classification of subfamilies based on our phylogenetic analysis.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology and Biotechnology, Worcester Polytechnic Institute Worcester, MA, USA.

ABSTRACT
Kinesins are an ancient superfamily of microtubule dependent motors. They participate in an extensive and diverse list of essential cellular functions, including mitosis, cytokinesis, cell polarization, cell elongation, flagellar development, and intracellular transport. Based on phylogenetic relationships, the kinesin superfamily has been subdivided into 14 families, which are represented in most eukaryotic phyla. The functions of these families are sometimes conserved between species, but important variations in function across species have been observed. Plants possess most kinesin families including a few plant specific families. With the availability of an ever increasing number of genome sequences from plants, it is important to document the complete complement of kinesins present in a given organism. This will help develop a molecular framework to explore the function of each family using genetics, biochemistry, and cell biology. The moss Physcomitrella patens has emerged as a powerful model organism to study gene function in plants, which makes it a key candidate to explore complex gene families, such as the kinesin superfamily. Here we report a detailed phylogenetic characterization of the 71 kinesins of the kinesin superfamily in Physcomitrella. We found a remarkable conservation of families and subfamily classes with Arabidopsis, which is important for future comparative analysis of function. Some of the families, such as kinesins 14s are composed of fewer members in moss, while other families, such as the kinesin 12s are greatly expanded. To improve the comparison between species, and to simplify communication between research groups, we propose a classification of subfamilies based on our phylogenetic analysis.

No MeSH data available.


Related in: MedlinePlus

Gene models of orphan kinesins. Schematic diagrams showing the structure and domain architecture of orphan kinesins. Domains are indicated at the bottom of the diagrams.
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Figure 15: Gene models of orphan kinesins. Schematic diagrams showing the structure and domain architecture of orphan kinesins. Domains are indicated at the bottom of the diagrams.

Mentions: We have grouped the remainder moss kinesins into four classes based on the similarity of their motor domain. Class I is composed of two related kinesins with no homologs in Arabidopsis or animals (Figure 14). The gene models for the region outside of the motor domain may not be well predicted due to limited transcript sequence information, so it is difficult to deduce any specific function from the available gene model sequence (Figure 15). A similar situation is present for the single member of class III (Figures 14 and 15). Due to the small number of members in these classes it should be relatively simple to evaluate their function using the various loss of function techniques available in Physcomitrella. However, it is also relevant to mention that at this point it is hard to rule out the possibility that these genes might be pseudogenes.


Phylogenetic analysis of the Kinesin superfamily from physcomitrella.

Shen Z, Collatos AR, Bibeau JP, Furt F, Vidali L - Front Plant Sci (2012)

Gene models of orphan kinesins. Schematic diagrams showing the structure and domain architecture of orphan kinesins. Domains are indicated at the bottom of the diagrams.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3472504&req=5

Figure 15: Gene models of orphan kinesins. Schematic diagrams showing the structure and domain architecture of orphan kinesins. Domains are indicated at the bottom of the diagrams.
Mentions: We have grouped the remainder moss kinesins into four classes based on the similarity of their motor domain. Class I is composed of two related kinesins with no homologs in Arabidopsis or animals (Figure 14). The gene models for the region outside of the motor domain may not be well predicted due to limited transcript sequence information, so it is difficult to deduce any specific function from the available gene model sequence (Figure 15). A similar situation is present for the single member of class III (Figures 14 and 15). Due to the small number of members in these classes it should be relatively simple to evaluate their function using the various loss of function techniques available in Physcomitrella. However, it is also relevant to mention that at this point it is hard to rule out the possibility that these genes might be pseudogenes.

Bottom Line: We found a remarkable conservation of families and subfamily classes with Arabidopsis, which is important for future comparative analysis of function.Some of the families, such as kinesins 14s are composed of fewer members in moss, while other families, such as the kinesin 12s are greatly expanded.To improve the comparison between species, and to simplify communication between research groups, we propose a classification of subfamilies based on our phylogenetic analysis.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology and Biotechnology, Worcester Polytechnic Institute Worcester, MA, USA.

ABSTRACT
Kinesins are an ancient superfamily of microtubule dependent motors. They participate in an extensive and diverse list of essential cellular functions, including mitosis, cytokinesis, cell polarization, cell elongation, flagellar development, and intracellular transport. Based on phylogenetic relationships, the kinesin superfamily has been subdivided into 14 families, which are represented in most eukaryotic phyla. The functions of these families are sometimes conserved between species, but important variations in function across species have been observed. Plants possess most kinesin families including a few plant specific families. With the availability of an ever increasing number of genome sequences from plants, it is important to document the complete complement of kinesins present in a given organism. This will help develop a molecular framework to explore the function of each family using genetics, biochemistry, and cell biology. The moss Physcomitrella patens has emerged as a powerful model organism to study gene function in plants, which makes it a key candidate to explore complex gene families, such as the kinesin superfamily. Here we report a detailed phylogenetic characterization of the 71 kinesins of the kinesin superfamily in Physcomitrella. We found a remarkable conservation of families and subfamily classes with Arabidopsis, which is important for future comparative analysis of function. Some of the families, such as kinesins 14s are composed of fewer members in moss, while other families, such as the kinesin 12s are greatly expanded. To improve the comparison between species, and to simplify communication between research groups, we propose a classification of subfamilies based on our phylogenetic analysis.

No MeSH data available.


Related in: MedlinePlus