A Genomic Analysis Of Paenibacillus Macerans ATCC 8244, A Gram Positive Nitrogen Fixing Bacterium

Abdul Rahman, Ahmad Yamin (2016) A Genomic Analysis Of Paenibacillus Macerans ATCC 8244, A Gram Positive Nitrogen Fixing Bacterium. Masters thesis, Universiti Sains Malaysia.

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    Abstract

    Paenibacillus macerans ATCC 8244 adalah bakteria pembentuk spora jenis Gram-positif yang berkemungkinan mempunyai kebolehan metabolik yang paling luas antara ahli genus Paenibacillus. P. macerans boleh melakukan fermentasi gula heksosa, pentosa, selulosa dan hemiselulosa. Di samping itu, keupayaan untuk mengikat nitrogen mewujudkan potensi agronomi. Kajian ini mengemukakan satu pendekatan genomik menyeluruh untuk pencirian mikroorganisma ini. Analisis filogenomik menunjukkan bahawa genom terdekat yang dikenalpasti adalah P. macerans strain ZY18 dengan identiti 98 peratus. Perhimpunan draf genom menghasilkan sejumlah 7.305.296 pasangan bes (bp) yang dibentuk oleh 97 perancah. Nilai N50 bagi perancah adalah 157,355 bp. Saiz purata perancah adalah 75,312 bp dan nisbah GC purata genom draf adalah 53.14%. Ramalan dan anotasi gen yang dibuat pada peringkat perancah menghasilkan 6953 jujukan pengekodan. Ini termasuk 85 gen tRNA dan 9 gen rRNA. Paenibacillus macerans ATCC 8244 is a Gram-positive, spore-forming bacterium with possibly the widest metabolic capabilities among the Paenibacillus genus. It is able to perform fermentation of hexoses, deoxyhexoses, pentoses, cellulose, and hemicelluloses. In addition, its ability to fix nitrogen creates an agronomic potential. This study presents a whole genomic approach to give a holistic view of the features of this microorganism. A phylogenomic analysis revealed that the nearest genome identified was Paenibacillus macerans strain ZY18 with 98 percent identity. The draft genome assembly yielded a total of 7,305,296 base pairs (bp) formed by 97 scaffolds. The N50 value of the scaffold was 157,355 bp. The average scaffold size was 75,312 bp and the average GC ratio of the draft genome was 53.14 %. Gene prediction and annotation performed at the scaffold level yielded 6953 coding sequences. These included genes for 85 tRNAs and 9 rRNAs.

    Item Type: Thesis (Masters)
    Subjects: Q Science > QH Natural history > QH1 Natural history (General - Including nature conservation, geographical distribution)
    Divisions: Pusat Pengajian Sains Kajihayat (School of Biological Sciences) > Thesis
    Depositing User: Mr Noorazilan Noordin
    Date Deposited: 15 Feb 2017 16:08
    Last Modified: 10 Apr 2017 10:12
    URI: http://eprints.usm.my/id/eprint/32093

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