NDLI: Genome Analysis of Planctomycetes Inhabiting Blades of the Red Alga Porphyra umbilicalis

Content Provider	PubMed Central
Author	Kim, Jay W. Brawley, Susan H. Prochnik, Simon Mansi, Chovatia Grimwood, Jane Jenkins, Jerry Kurt, Labutti Mavromatis, Konstantinos Nolan, Matt Zane, Matthew Schmutz, Jeremy Stiller, John W. Grossman, Arthur R.
Editor	Jean-françois, Pombert
Abstract	Porphyra is a macrophytic red alga of the Bangiales that is important ecologically and economically. We describe the genomes of three bacteria in the phylum Planctomycetes (designated P1, P2 and P3) that were isolated from blades of Porphyra umbilicalis (P.um.1). These three Operational Taxonomic Units (OTUs) belong to distinct genera; P2 belongs to the genus Rhodopirellula, while P1 and P3 represent undescribed genera within the Planctomycetes. Comparative analyses of the P1, P2 and P3 genomes show large expansions of distinct gene families, which can be widespread throughout the Planctomycetes (e.g., protein kinases, sensors/response regulators) and may relate to specific habitat (e.g., sulfatase gene expansions in marine Planctomycetes) or phylogenetic position. Notably, there are major differences among the Planctomycetes in the numbers and sub-functional diversity of enzymes (e.g., sulfatases, glycoside hydrolases, polysaccharide lyases) that allow these bacteria to access a range of sulfated polysaccharides in macroalgal cell walls. These differences suggest that the microbes have varied capacities for feeding on fixed carbon in the cell walls of P.um.1 and other macrophytic algae, although the activities among the various bacteria might be functionally complementary in situ. Additionally, phylogenetic analyses indicate augmentation of gene functions through expansions arising from gene duplications and horizontal gene transfers; examples include genes involved in cell wall degradation (e.g., κ-carrageenase, alginate lyase, fucosidase) and stress responses (e.g., efflux pump, amino acid transporter). Finally P1 and P2 contain various genes encoding selenoproteins, many of which are enzymes that ameliorate the impact of environmental stresses that occur in the intertidal habitat.
Related Links	http://dx.doi.org/10.1371/journal.pone.0151883
Starting Page	151883
File Format	PDF
ISSN	19326203
e-ISSN	19326203
Journal	PLoS ONE
Issue Number	3
Volume Number	11
Language	English
Publisher	Public Library of Science
Publisher Date	2016-03-25
Access Restriction	Open
Rights Holder	Public Library of Science
Subject Keyword	Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Multidisciplinary

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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Phycobilisome Heterogeneity in the Red Alga Porphyra umbilicalis 1

The amino acid sequence of ferredoxin from the red alga Porphyra umbilicalis.

Improved methods for basic molecular manipulation of the red alga Porphyra umbilicalis (Rhodophyta: Bangiales)

Trehalose and (iso)floridoside production under desiccation stress in red alga Porphyra umbilicalis and the genes involved in their synthesis

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The nucleotide sequence of 5S rRNA from a red alga, Porphyra yezoensis.

Diversity and Abundance of the Bacterial Community of the Red Macroalga Porphyra umbilicalis: Did Bacterial Farmers Produce Macroalgae?

Genome Analysis of Planctomycetes Inhabiting Blades of the Red Alga Porphyra umbilicalis

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Phycobilisome Heterogeneity in the Red Alga Porphyra umbilicalis 1

The amino acid sequence of ferredoxin from the red alga Porphyra umbilicalis.

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