We previously found cytotoxic effects of tomato leaf extract (TLE) on the MCF-7 breast cancer cell line. The aim of this study was to ascertain the molecular mechanisms associated with the usage of TLE as an anticancer agent by microarray analysis using mRNA from MCF-7 breast cancer cells after treatment with TLE for 1 hr and 48 hrs. Approximately 991 genes out of the 30,000 genes in the human genome were significantly (p2.00. In order to focus on genes that were involved in cancer cell growth, only twenty-nine genes were selected, either down-regulated or up-regulated after treatment with TLE. Microarray assay results were confirmed by analyzing 10 of the most up and down regulated genes related to cancer cells progression using real-time PCR. Treatment with TLE induced significant up-regulation in the expression of the CRYAB, PIM1, BTG1, CYR61, HIF1-α and CEBP-β genes after 1 hr and 48 hrs, whereas the TXNIP and THBS1 genes were up-regulated after 1 hr of treatment but down-regulated after 48 hrs. In addition both the HMG1L1 and HIST2H3D genes were down-regulated after 1 hr and 48 hrs of treatment. These results demonstrate the potent activity of TLE as an anticancer agent.

Biofertilizers are promising technologies for achieving sustainable agriculture. However, high-temperature tolerance is a constraint that limits the function of microbial inoculants. To characterize the genetic changes responsible for the high-temperature tolerance of rhizobia, mutant screening was performed using Bradyrhizobium diazoefficiens USDA110. The wild-type cells were mutagenized with carbon-ion irradiation, and two mutant strains, designated M10 and M14, were obtained after a three-day heat-shock treatment at 43 °C. In particular, M14 showed superior growth at 36 °C, at which temperature growth of the wild type was extremely slow, whereas M14 grew more slowly than the wild type at 32 °C. Whole-genome sequencing revealed that M10 had seven point mutations, whereas M14 had eight point mutations together with a 1.27 Mb inversion. RNA sequencing showed that the number of differentially expressed genes greatly exceeded the actual number of induced mutations. In M14, a gene cluster associated with pyruvate metabolism was markedly downregulated, probably because of disjunction with the promoter region after inversion, and was considered to be the cause of the slow growth rate of M14 at 32 °C. Notably, transmembrane proteins, including porins, were enriched among the genes upregulated in both M10 and M14. M14 was confirmed to retain symbiotic functions with soybeans. These results indicate that high-temperature tolerance was conferred by random mutagenesis while the symbiotic functions of rhizobia was maintained.

TRPV5 and TRPV6 channels are related to vigorous regulations under physiological, pathological, and therapeutic conditions. This study aims to predict the 3D structures of the TRPV channels by developing homology models based on the chosen multiple sequence alignment. In this study, we compared the results of the sequence alignments from three multiple sequence alignment programs; CLUSTALW, MAFFT and MUSCLE. The 3D structures of the TRPV channels were modeled based on the X-ray crystal structure of Kv1.2 channel (PDB code: 2R9R.pdb). Our results showed that the multiple sequence alignment of TRPV channels and the Kv1.2 channel generated by MAFFT showed the highest identical residues. Furthermore, based on structural assessment and evaluation, all the models showed the RMSD values of less than 2.7 Å, with Z-score closed to template structure and more than 99% of the residues located in allowed regions in Ramachandran plot. The IDAP residues form the pore region of the human TRPV5 model. While IDGP residues form the pore region of the mouse TRPV5 and TRPV6 as well as human TRPV6 channels.

Climate change poses increasing challenges to rice production and food security, particularly in tropical regions such as Malaysia. This article presents a whole-genome resequencing dataset of a Malaysian-developed advanced rice mutant line, NMR191, and its parental cultivar, Pongsu Seribu (PS2), generated through ion beam irradiation-induced mutagenesis. Sequencing was performed using the Illumina NovaSeq X platform at approximately 30 × coverage, producing high-quality paired-end reads. Clean reads were aligned to the Oryza sativa Indica reference genome (GCA_000004655), followed by genome-wide identification of single nucleotide polymorphisms (SNPs) and insertions/deletions (InDels). The dataset comprises 24.8 GB and 28.6 GB of clean sequencing data for NMR191 and PS2, respectively. Raw sequencing reads are publicly available in the NCBI Sequence Read Archive under accession numbers and SRR36593642. This dataset provides a valuable genomic resource for variant discovery, comparative genomics, and future studies in rice breeding and mutation research.