News Update on Nucleotide Sequences Research: Aug – 2019

A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences

Some straightforward formulae were obtained that change US to estimate organic process distances in terms of the quantity of ester substitutions (and, also, the organic process rates once the divergence times square measure known). In comparison a try of ester sequences, we have a tendency to distinguish 2 varieties of differences; if homologous sites square measure occupied by completely different ester bases however each square measure purines or each pyrimidines, the distinction is named sort I (or “transition” type), while, if one in all the 2 could be a purine and also the different could be a pyrimidine, the distinction is named sort II (or “transversion” type). [1]

Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mpl8 and pUC19 vectors

Three types of enhancements are introduced into the M13-based biological research systems. (1) New Escherichia coli host strains are created for the E. coli virus M13 and therefore the high-copy-number pUC-plasmid biological research vectors. Mutations introduced into these strains improve biological research of unqualified polymer and of repetitive sequences. a brand new suppressorless strain facilitates the biological research of hand-picked recombinants. (2) the entire ester sequences of the M 13mp and pUC vectors are compiled from variety of sources, together with the sequencing of hand-picked segments. [2]

BLAST 2 SEQUENCES, a new tool for comparing protein and nucleotide sequences

BLAST two SEQUENCES’, a replacement BLAST-based tool for orienting  2 macromolecule or ester sequences, is delineated . whereas the quality BLAST program is wide wont to look for homologous sequences in ester and macromolecule databases, one typically has to compare solely 2 sequences that square measure already glorious to be homologous, coming back from connected species or, e.g. totally different isolates of constant virus. In such cases looking out the whole info would be unnecessarily long. ‘BLAST two SEQUENCES’ utilizes the BLAST formula for pairwise DNA-DNA or protein-protein sequence comparison. [3]

The genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids

Streptomyces rochei 7434AN4 produces 2 structurally unrelated polyketide antibiotics, lankacidin and lankamycin, and carries 3 linear plasmids, pSLA2-L (211 kb), -M (113 kb), and -S (18 kb), whose ester sequences were antecedently rumored. the whole ester sequence of the S. rochei body has currently been determined victimization the long-read PacBio RS-II sequencing along side short-read Illumina ordering instrument IIx sequencing and Roche 454 pyrosequencing techniques. The assembled sequence discovered Associate in Nursing eight,364,802-bp linear body with a high G + C content of seventy one.7% and 7,568 protein-coding ORFs. [4]

Genetic Structure and Nucleotide Sequences of Three Productivity Trait Genes, in Egyptian Buffalo

One of the most sources of meat and milk in Egypt is buffalo, of watercourse sort. The marker aided selection-depending on the secure genetic markers is taken into account to be the effective method for improvement of buffalo productivity. This work aimed to check the genetic structure and ester sequences of 3 productivity genes namely; LGB, PIT-1, and POUF-1 in Egyptian buffalo. This study is performed by victimisation genomic polymer, that was extracted from a hundred feminine buffaloes. The polymer extracts were subjected to PCR by victimisation some specific primers of the tested genes. [5]

Reference

[1] Kimura, M., 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of molecular evolution, 16(2), pp.111-120. (Web Link)

[2] Yanisch-Perron, C., Vieira, J. and Messing, J., 1985. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mpl8 and pUC19 vectors. Gene, 33(1), pp.103-119. (Web Link)

[3] Tatusova, T.A. and Madden, T.L., 1999. BLAST 2 Sequences, a new tool for comparing protein and nucleotide sequences. FEMS microbiology letters, 174(2), pp.247-250. (Web Link)

[4] The genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids
Yosi Nindita, Zhisheng Cao, Amirudin Akhmad Fauzi, Aiko Teshima, Yuya Misaki, Rukman Muslimin, Yingjie Yang, Yuh Shiwa, Hirofumi Yoshikawa, Michihira Tagami, Alexander Lezhava, Jun Ishikawa, Makoto Kuroda, Tsuyoshi Sekizuka, Kuninobu Inada, Haruyasu Kinashi & Kenji Arakawa
Scientific Reportsvolume 9, Article number: 10973 (2019) (Web Link)

[5] E. Othman, O., Abou-Eisha, A., E. El-Din, A. and El-Maaty, N. (2018) “Genetic Structure and Nucleotide Sequences of Three Productivity Trait Genes, in Egyptian Buffalo”, Annual Research & Review in Biology, 22(5), pp. 1-8. doi: 10.9734/ARRB/2018/39001. (Web Link)