- Email: [email protected]
Study on biocatalyzed artificial photosynthesis
S54
Abstracts / Journal of Biotechnology 185S (2014) S37–S125
Study on biocatalyzed artificial photosynthesis Jingfei Luan, Bin Lin ∗ State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, China E-mail address: [email protected] (B. Lin). Biocatalyzed artificial photosynthesis was carried out in this article. The solar-energy transformation for green plants by coupling redox biocatalysis with photocatalysis for simulating natural photosynthesis in the light of visible-light-driven regeneration of enzyme cofactors. Utilization of solar energy was a key factor during natural photosynthesis, keeping the viability of green plants and photosynthetic bacteria by converting solar energy into chemical energy. The key designable principles for electron donors, photosensitizers, and electron mediators were described for artificial photosynthesis which dealt with biocatalytic assemblies. During the photosynthetic process, photon energy was assimilated by dye-sensitized photosystems. The photochemical cofactor regeneration owned potential advantages for utilizing clean and luxuriant solar energy, and its turnover frequencies of 1855/h were improved greatly compared with the enzymatic regeneration method. The artificial photosynthesis in biocatalytic assemblies was investigated by using organic photosensitizers indigo carmine and crystal violet and redox enzymatic reactions with photochemical regeneration of biological electron mediator cresyl fast violet. We had successfully fabricated the photosynthetic system which was involve with redox biocatalysts, and the electron donors derived from novel BaYSbO4 and BaSmSbO4. Acknowledgment This work was supported by the National Natural Science Foundation of China (No. 21277067). http://dx.doi.org/10.1016/j.jbiotec.2014.07.181 Bioinformatics/System Biology The binding sites of unique miRNAs in the human mRNAs
many major biological processes. Most of these binding sites are located in mRNA of genes involved in apoptosis, cellular cycle, proliferation, stress responses. http://dx.doi.org/10.1016/j.jbiotec.2014.07.182 Multiple miRNA binding sites in CDS of human mRNAs Niyazova Raigul 1,∗ , Berillo Olga 1 , Atambayeva Shara 1 , Pyrkova Anna 1 , Ryskulova Almagul 2 , Ivashchenko Anatoly 1 1
Department of Biotechnology, Al-Farabi Kazakh National University, Almaty, Kazakhstan 2 Kazakh-Russian Medical University, Almaty, Kazakhstan E-mail address: [email protected] (N. Raigul). The structural organization of miR-3960, miR-3620-5p, miR-8072 binding sites in the mRNA of human genes was established using program MirTarget. The miRNA:mRNA sites were selected with binding energy more 90%. Several miR-3960 binding sites were identified through 1–5 nucleotides in mRNA sequences. The nucleotide sequences of revealed sites in the CDS encode polyalanine or polyproline. The structural organization of miRNA binding sites is identical in 5 UTRs, CDSs and 3 UTRs. MiR-3960 have 565 binding sites located in 5 UTRs of target genes and their nucleotide sequences are high conservated. MiR-3960 sequence differ from miR-8072-5p by seven nucleotides. Majority of miR-8072 binding sites were revealed in 5 UTRs, CDSs and only 17% in 3 UTRs. CDK2AP1, DAB2IP, NF1, TSPYL2 are general targets for both miRNAs and they participate in cellular cycle. BBC3, BMF, CSRNP1 are targets for miR-3960 and miR-8072 and they involved in apoptosis. TGFB1 participate in regulating of cellular cycle and apoptosis. MRNA of this gene is target for miR-3620-5р. LZTS1 gene participate in regulation of cellular cycle and is target for miR-3620-5р. MiR-3960, miR-3620-5p and miR-8072 can be bind with mRNA of target-genes involved in regulation of cell cycle and apoptosis. Revealed miRNA can play important role in the development of cancer.
Ivashchenko Anatoly ∗ , Berillo Olga, Pyrkova Anna, Niyazova Raigul, Atambayeva Shara
http://dx.doi.org/10.1016/j.jbiotec.2014.07.183
Department of Biotechnology, Al-Farabi Kazakh National University, Almaty, Kazakhstan
Interaction between miRNA and mRNA of MYB transcription factors genes of maize
E-mail address: a [email protected] (I. Anatoly).
Saltanat Orazova ∗ , Alexandra Sagaydak, Anatoliy Ivashchenko
The binding energy (G) between the 2563 hsa-miRNAs and the mRNAs of 17,494 human genes was calculated using the MirTarget program, which was developed in our laboratory. The binding sites located in the 3 UTR, CDS and 5 UTR of mRNAs were selected with G more 90% of maximal energy. miR-619-5p, miR-5095, miR5096 and miR-5585-3p had more 600 target genes each and were termed unique miRNAs (umiRNAs). miR-619-5p had 1811 binding sites on 1215 target mRNAs. The mRNAs of 197 genes had completely complementary binding sites for miR-619-5p. miR-5096 had 997 binding sites on 832 target mRNAs. The mRNAs of 42 and two genes had completely complementary binding sites for miR5096 and miR-5095 correspondingly. The 655 target gene mRNAs had 734 binding sites for miR-5095. 725 target gene mRNAs had 844 binding sites for miR-5585-3p. The nucleotide sequences with lengths of 95 nt of all mRNA parts that contained multiple homologous umiRNA binding sites. The miR-5095 and miR-619-5p binding sites partially overlapped in many cases. It is possible that these umiRNAs are coordinators of gene expression that participate in
Department of Biotechnology, Al-Farabi Kazakh National University, Almaty, Kazakhstan E-mail address: [email protected] (S. Orazova). The binding sites of 322 miRNA on mRNA of 216 maize MYB family genes were revealed by the program MirTarget, which calculate binding free energy (?G) of hybridization of miRNA with mRNA and attitude (G/(Gm, where (Gm is maximal ?G. For 12 miRNA of miR156a-l family detected only one target gene NM 001111873 with 85-90% (G/(Gm. miR156b*,d*,f*,g*,j*,k* were bonded with mRNA from one to three MYB family genes with (G/(Gm equal to 85-88%. Each miRNA of miR159a-k family was associated with one site of 11 MYB genes mRNA. The value (G/(Gm was equal 8593%. miR159? also was bonded with mRNA of 11 genes, including fully complementary mRNA of two genes. miR159?* was associated with mRNA of 19 genes, including mRNA of one gene was fully complementary. miR159?* had a binding sites in 19 genes mRNA,
Abstracts / Journal of Biotechnology 185S (2014) S37–S125
Study on biocatalyzed artificial photosynthesis Jingfei Luan, Bin Lin ∗ State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, China E-mail address: [email protected] (B. Lin). Biocatalyzed artificial photosynthesis was carried out in this article. The solar-energy transformation for green plants by coupling redox biocatalysis with photocatalysis for simulating natural photosynthesis in the light of visible-light-driven regeneration of enzyme cofactors. Utilization of solar energy was a key factor during natural photosynthesis, keeping the viability of green plants and photosynthetic bacteria by converting solar energy into chemical energy. The key designable principles for electron donors, photosensitizers, and electron mediators were described for artificial photosynthesis which dealt with biocatalytic assemblies. During the photosynthetic process, photon energy was assimilated by dye-sensitized photosystems. The photochemical cofactor regeneration owned potential advantages for utilizing clean and luxuriant solar energy, and its turnover frequencies of 1855/h were improved greatly compared with the enzymatic regeneration method. The artificial photosynthesis in biocatalytic assemblies was investigated by using organic photosensitizers indigo carmine and crystal violet and redox enzymatic reactions with photochemical regeneration of biological electron mediator cresyl fast violet. We had successfully fabricated the photosynthetic system which was involve with redox biocatalysts, and the electron donors derived from novel BaYSbO4 and BaSmSbO4. Acknowledgment This work was supported by the National Natural Science Foundation of China (No. 21277067). http://dx.doi.org/10.1016/j.jbiotec.2014.07.181 Bioinformatics/System Biology The binding sites of unique miRNAs in the human mRNAs
many major biological processes. Most of these binding sites are located in mRNA of genes involved in apoptosis, cellular cycle, proliferation, stress responses. http://dx.doi.org/10.1016/j.jbiotec.2014.07.182 Multiple miRNA binding sites in CDS of human mRNAs Niyazova Raigul 1,∗ , Berillo Olga 1 , Atambayeva Shara 1 , Pyrkova Anna 1 , Ryskulova Almagul 2 , Ivashchenko Anatoly 1 1
Department of Biotechnology, Al-Farabi Kazakh National University, Almaty, Kazakhstan 2 Kazakh-Russian Medical University, Almaty, Kazakhstan E-mail address: [email protected] (N. Raigul). The structural organization of miR-3960, miR-3620-5p, miR-8072 binding sites in the mRNA of human genes was established using program MirTarget. The miRNA:mRNA sites were selected with binding energy more 90%. Several miR-3960 binding sites were identified through 1–5 nucleotides in mRNA sequences. The nucleotide sequences of revealed sites in the CDS encode polyalanine or polyproline. The structural organization of miRNA binding sites is identical in 5 UTRs, CDSs and 3 UTRs. MiR-3960 have 565 binding sites located in 5 UTRs of target genes and their nucleotide sequences are high conservated. MiR-3960 sequence differ from miR-8072-5p by seven nucleotides. Majority of miR-8072 binding sites were revealed in 5 UTRs, CDSs and only 17% in 3 UTRs. CDK2AP1, DAB2IP, NF1, TSPYL2 are general targets for both miRNAs and they participate in cellular cycle. BBC3, BMF, CSRNP1 are targets for miR-3960 and miR-8072 and they involved in apoptosis. TGFB1 participate in regulating of cellular cycle and apoptosis. MRNA of this gene is target for miR-3620-5р. LZTS1 gene participate in regulation of cellular cycle and is target for miR-3620-5р. MiR-3960, miR-3620-5p and miR-8072 can be bind with mRNA of target-genes involved in regulation of cell cycle and apoptosis. Revealed miRNA can play important role in the development of cancer.
Ivashchenko Anatoly ∗ , Berillo Olga, Pyrkova Anna, Niyazova Raigul, Atambayeva Shara
http://dx.doi.org/10.1016/j.jbiotec.2014.07.183
Department of Biotechnology, Al-Farabi Kazakh National University, Almaty, Kazakhstan
Interaction between miRNA and mRNA of MYB transcription factors genes of maize
E-mail address: a [email protected] (I. Anatoly).
Saltanat Orazova ∗ , Alexandra Sagaydak, Anatoliy Ivashchenko
The binding energy (G) between the 2563 hsa-miRNAs and the mRNAs of 17,494 human genes was calculated using the MirTarget program, which was developed in our laboratory. The binding sites located in the 3 UTR, CDS and 5 UTR of mRNAs were selected with G more 90% of maximal energy. miR-619-5p, miR-5095, miR5096 and miR-5585-3p had more 600 target genes each and were termed unique miRNAs (umiRNAs). miR-619-5p had 1811 binding sites on 1215 target mRNAs. The mRNAs of 197 genes had completely complementary binding sites for miR-619-5p. miR-5096 had 997 binding sites on 832 target mRNAs. The mRNAs of 42 and two genes had completely complementary binding sites for miR5096 and miR-5095 correspondingly. The 655 target gene mRNAs had 734 binding sites for miR-5095. 725 target gene mRNAs had 844 binding sites for miR-5585-3p. The nucleotide sequences with lengths of 95 nt of all mRNA parts that contained multiple homologous umiRNA binding sites. The miR-5095 and miR-619-5p binding sites partially overlapped in many cases. It is possible that these umiRNAs are coordinators of gene expression that participate in
Department of Biotechnology, Al-Farabi Kazakh National University, Almaty, Kazakhstan E-mail address: [email protected] (S. Orazova). The binding sites of 322 miRNA on mRNA of 216 maize MYB family genes were revealed by the program MirTarget, which calculate binding free energy (?G) of hybridization of miRNA with mRNA and attitude (G/(Gm, where (Gm is maximal ?G. For 12 miRNA of miR156a-l family detected only one target gene NM 001111873 with 85-90% (G/(Gm. miR156b*,d*,f*,g*,j*,k* were bonded with mRNA from one to three MYB family genes with (G/(Gm equal to 85-88%. Each miRNA of miR159a-k family was associated with one site of 11 MYB genes mRNA. The value (G/(Gm was equal 8593%. miR159? also was bonded with mRNA of 11 genes, including fully complementary mRNA of two genes. miR159?* was associated with mRNA of 19 genes, including mRNA of one gene was fully complementary. miR159?* had a binding sites in 19 genes mRNA,