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Версія від 19:49, 11 червня 2017, створена Knot32gallon (обговореннявнесок) (Створена сторінка: coli using Kusaya gravy, a traditional Japanese fermentation food product of dried fish, as a source of the metagenome. The library containing ?380,000 clones i...)

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coli using Kusaya gravy, a traditional Japanese fermentation food product of dried fish, as a source of the metagenome. The library containing ?380,000 clones included insert fragments ranging from 5 to 20 kbp in length. A portion of the library (?10,000 clones) was used to screen for BGL by growing on LB agar plates containing X-glc as a substrate. Although overnight cultivation generated very few positive (i.e., blue) colonies, prolonged incubation at 4��C gradually increased the number of positive colonies, yielding ?1,000 blue colonies after 3 weeks. The positive colonies were then streaked onto LB agar plates containing X-glc for single isolation, yielding 828 clones in total. Screening for Glucose-Tolerant BGLs The clones initially identified as positive were arrayed in a 96-well format. Clones were grown in LB, and whole cells were used to determine activity in the presence and absence of 10% (w/v) glucose. Although the majority of clones exhibited no activity in the presence of 10% (w/v) glucose, seven (5A7, 5B6, 5F2, 6C8, 7F9, 9B4, and 10H11) retained >20% activity relative to the glucose-free Adenylate cyclase condition. DNA sequencing was performed from one end of the plasmids, revealing that three clones (7F9, 9B4, and 10H11) had identical insert fragments. DNA Sequencing of Glucose-Tolerant BGLs Plasmids were purified from the five different clones: 5A7, 5B6, 5F2, 6C8, and 7F9. For each plasmid, a total of 96 shotgun clones were analyzed. Although no complete bgl gene was obtained from the partially determined nucleotide sequences, the results suggested that the clones carried bgl genes with high identity. We then synthesized a set of PCR primers to amplify the bgl gene from the five plasmids. All five clones produced a 1.4-kbp amplicon. DNA sequencing of the fragments revealed that the five bgl genes could be classified into two groups, differing by only two nucleotide substitutions. The deduced amino acid sequences were identical, and the gene obtained from clone 5A7 was used for subsequent studies. The bgl gene ks5a7 contained 1,359 bp, with a GC content of 32.3%. The predicted ATG initiation codon was preceded by a possible ribosomal binding site, 5��-AAGAGGA-3��. The deduced amino acid sequence contained 452 amino acids and had a calculated molecular mass of 52,509 Da. Using BLAST-P1, we found that Ks5A7 was highly similar to enzymes belonging to the glycoside hydrolase family 1 (GH1) of the carbohydrate-active enzyme classification database (Lombard et al., 2014)2. Ks5A7 exhibited the highest identity (57%) with a putative BGL from Clostridiales bacterium oral taxon 876 and a 55% identity with a putative BGL from Clostridium hathewayi DSM13479. When compared with functionally characterized BGLs, the Ks5A7 showed the highest (46%) identity with that of Thermotoga neapolitana (Yernool et al., 2000; Park et al., 2005).