| dc.description | Genomic Analysis and Potential Applications of Pesticide Degrading Serratia sp. strain HSTU-BF1R2 Towards Biofertilizer Development for Brinjal Cultivation; A THESIS BY SAGAR BARUA, Student ID: 2205036, Session: 2022-2023; Submitted to the Department of Biochemistry and Molecular Biology, Hajee Mohammad Danesh Science and Technology University,
Dinajpur in partial fulfilment of the requirements for the degree of MASTER OF SCIENCE (M.S.) IN BIOCHEMISTRY AND MOLECULAR BIOLOGY, DEPARTMENT OF BIOCHEMISTRY AND MOLECULAR BIOLOGY, HAJEE MOHAMMAD DANESH SCIENCE AND TECHNOLOGY UNIVERSITY, DINAJPUR-5200; JUNE 2023. | en_US |
| dcterms.abstract | Pesticides are essential for pest control and enhancing crop productivity in modern
agriculture, but they can also have detrimental effects on plants and the environment.
Phytotoxicity resulting from improper pesticide application can damage plant tissues and
compromise crop yield and quality. To address these challenges and promote sustainable
agricultural practices, there is a pressing need to explore biodegradable pesticide
alternatives that effectively target pests while minimizing harm to non-target organisms
and boosting crop yield. In this context, the current research aims to investigate the entire
genomic sequence of a novel pesticide degrading strain isolated from eggplants. The
strain characterized by biochemical and genomic analysis showed the strain belongs to
the Serratia sp. group in Enterobacteriaceae family. This strain, named Serratia sp.
strain HSTU-BF1R2, has not been previously reported, making it a promising candidate
for pesticide degradation. This study was aimed at a new endophytic bacterium as well as
to observe its effects on brinjal in filed trail. Hence, the recently identified using minimal
salt agar (MSM) Serratia sp. strain HSTU-BF1R2 degrade chlorpyrifos and
cypermethrin. It showed significant result on growth promoting effects compared with
control in field experiment significant value was (p<0.05). The strain genome was found
consisting of genome size is 5,134,224 base pairs with a GC content of 59.6%. It
contains 918 protein-coding genes, including genes associated with plant biopolymer
degradation, suggesting potential applications and it possesses 22 pesticide-degrading
proteins, 131 growth-promoting proteins, and 48 stress proteins, indicating potential
applications in bioremediation, agriculture, and stress tolerance. Molecular virtual
screening identified pesticide ligands and their interactions with proteins, offering
insights into their mode of action. The 3D structure of 11 potential model proteins that
can degrade pesticides was validated, and virtual screening using 105 different pesticides
revealed that the proteins exhibit strong catalytic interaction with organophosphorus
pesticides. Selected docked complexes such as ampD-cypermethrin, pepA-menazon,
pepB-EPBP, pepQ- Azinphos methyl etc explore their catalytic triads in visualization.
Overall, this whole-genome analysis of Serratia sp. strain HSTU-BF1R2 provides
valuable insights into the genetic basis of pesticide degradation, along with virtual
screening and molecular docking analyses. This novel endophytic bacteria strain Serratia
sp. HSTU-BF1R2 holds promise as an intelligent biofertilizer component, contributing to
the sustainable cultivation of brinjal. | |
