Two UAEU’s students have succeed in exploring the genetic typing techniques for an unknown bacterium

Both Al-Reem Saif Al-Kaabi and Yasmeen Amer Saliha - Department of Biology at the College of Science -UAEU have explored techniques of genetic typing for an unknown bacterium and sequenced the sample using 16S based method. 16S rRNA analysis categorized the bacteria very closely to the species Pantoea agglomeran. Further, we sequenced the whole genome of bacteria using third generation sequencing technology within a methodical research "Whole Genome Sequencing of Plant Growth Promoting Bacteria “supervised by Dr. Khaled Amiri- Chair of Biology Department -UAEU.

The researcher, Al-Reem Al-Kaabi- In this study, we carried out 16s RNA based bacterial typing for an unknown bacterium, and sequenced the sample using 16S based method. 16S rRNA analysis categorized the bacteria very closely to the species Pantoea agglomeran. Further, we sequenced the whole genome of bacteria using third generation sequencing technology. Genome sequencing resulted in 4 MB assembled genome with an Average G+C content of 55%. Furthermore, we carried out a circular genome map of the assembled genome with the most closely related Pantoea Agglomeran species. Lastly, we found out the important genes that play a role in plant growth-promotion. In the future, we will work on knowing the benefits of these genes in the plant growth, which will improve our understanding of the activity of these genes.

For her part, the researcher, Yasmeen Amer Saliha indicated that although bacteria are very beneficial to humans, animals and plants, they could affect them negatively. For example, Staphylococcus aureus when found in natural human plants and on the skin does not cause infection. However, if it pass in the bloodstream or tissues it causes severe infection, as plant bacteria can cause serious diseases and can lead to plant death and damage to crops, where bacteria play an indispensable role in the digestive system, and help us break down solid materials that we cannot handle ourselves. Moreover, humans have some bacteria on the skin that protect it by removing other harmful bacteria from the skin. In addition, plants cannot produce the basic nitrogen molecule for its survival, in this case, the bacteria play a crucial role in helping to convert nitrogen in the atmosphere into ammonium or Nitrates form nitrogen, which allows plants to create amino acids and DNA, and this, is the basis block of DNA.

The study’s findings are many by using numerous techniques in DNA analysis, including determining the amount of DNA samples and their qualification by Nanodrop and Qubit, and measuring the quantity and quality of DNA by reading the complete absorption spectrum (220-750 nm) using NanoDrop and calculating the acid concentration Nuclear and absorption ratio at 260/280 and 230/260 nm. The sample was measured by using the Qubit flow meter. This quantitative system relies on dyes that glow only when they are bound to specific molecules, such as dsDNA, ssDNA, or RNA, as well as assess the quality of DNA.

Dr. Khalid Amiri applauded the efforts of the two students in accomplishing this eminent research and said: “Methodical research is rarely published for undergraduate students, but both students have proven that methodical passion is not limited to age but rather the pursuit toward truth and solutions to problems through the application of methodical knowledge”.

 

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Aug 5, 2020