Bioinformatic analysis of the metal-binding protein families and heavy metal resistance amongst cyanobacteria

Tin N. Chu, Lee Lee, Shankar Srinivasan

Research output: Chapter in Book/Report/Conference proceedingConference contribution

2 Citations (Scopus)

Abstract

Cyanobacteria are often used as an indicator of the presence and level of pollutants in the environment. They have been especially recognized for their ability to identify contamination of heavy metals. Class II metallothioneins (MTs). usually found in cyanobacieria, are low molecular weight metal-binding proteins and may be required for heavy metal tolerance. It will be important to examine the phylogenetic pattern as well as prokaryotic evolution of metal-binding protein families among cyanobactena. All the available protein sequences of cyanobacteria metallothioneins from GenBank, PDB and Pfam have been aligned and the phylogenetic tree was constructed by utilizing four multiple sequence alignment software ClustalW, T-Coffee, POA and GCG-PileUp. Eight cyanobacteria included in this study were Synechococcus sp. PCC 7942, Synechococcus sp. WH 8102, Thermosynechococcus vulcanus, Thermosynechococcus elongates BP-1, Nostoc sp. PCC 7120, Gloeohacter violaceus PCC 7421, Oscillatoria brevis, and Magnetospirillum magnetotacticum. 22 reported heavy metal resistant sequences from these 8 species of cyanobacteria were aligned. A phyletic pattern search tool provided by Cluster of Orthologous Groups (COGs) database, a collection of COGs from 63 sequenced prokaryotes and 3 unicellular eukaryotic genomes was also used to select a desired pattern of presence-absence of species [1]. Cn3D 4.1 program was used for structural alignment. The results indicated that the tree was composed by five clusters. Most Synechococcus and Thermosynechococcus were clustered into 2 clades while others had relatively far genetic distance with Synechococcus but closely linked to each other. Structure alignment of metallothionein among cyanobacteria indicated that a major portion of their structure are not identical but with similar properties such as polarity. The results clearly showed several conserved C-X-C motifs near N-and C-terminus of Class II metallothioneins.

Original languageEnglish
Title of host publicationProceedings of 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05
Pages507-511
Number of pages5
DOIs
StatePublished - 1 Dec 2005
Event2nd International Conference on Intelligent Sensing and Information Processing, ICISIP'05 - Chennai, India
Duration: 4 Jan 20057 Jan 2005

Publication series

NameProceedings - 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05
Volume2005

Other

Other2nd International Conference on Intelligent Sensing and Information Processing, ICISIP'05
CountryIndia
CityChennai
Period4/01/057/01/05

Fingerprint

Bioinformatics
Heavy metals
Metals
Coffee
Contamination
Genes
Molecular weight
Cyanobacteria
Carrier Proteins
Proteins
Metallothionein

Cite this

Chu, T. N., Lee, L., & Srinivasan, S. (2005). Bioinformatic analysis of the metal-binding protein families and heavy metal resistance amongst cyanobacteria. In Proceedings of 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05 (pp. 507-511). [1529507] (Proceedings - 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05; Vol. 2005). https://doi.org/10.1109/ICISIP.2005.1529507
Chu, Tin N. ; Lee, Lee ; Srinivasan, Shankar. / Bioinformatic analysis of the metal-binding protein families and heavy metal resistance amongst cyanobacteria. Proceedings of 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05. 2005. pp. 507-511 (Proceedings - 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05).
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Chu, TN, Lee, L & Srinivasan, S 2005, Bioinformatic analysis of the metal-binding protein families and heavy metal resistance amongst cyanobacteria. in Proceedings of 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05., 1529507, Proceedings - 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05, vol. 2005, pp. 507-511, 2nd International Conference on Intelligent Sensing and Information Processing, ICISIP'05, Chennai, India, 4/01/05. https://doi.org/10.1109/ICISIP.2005.1529507

Bioinformatic analysis of the metal-binding protein families and heavy metal resistance amongst cyanobacteria. / Chu, Tin N.; Lee, Lee; Srinivasan, Shankar.

Proceedings of 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05. 2005. p. 507-511 1529507 (Proceedings - 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05; Vol. 2005).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

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Chu TN, Lee L, Srinivasan S. Bioinformatic analysis of the metal-binding protein families and heavy metal resistance amongst cyanobacteria. In Proceedings of 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05. 2005. p. 507-511. 1529507. (Proceedings - 2005 International Conference on Intelligent Sensing and Information Processing, ICISIP'05). https://doi.org/10.1109/ICISIP.2005.1529507