Restriction map of the hepatitis B virus DNA cloned in Escherichia coli

Bichko, V.; Kozlovskaya, T.; Dishler, A. V.; Pumpen, P.; Janulaitis, A.; Gren, E.J.

doi:10.1016/0378-1119(82)90218-9

Cited by 7 publications

(4 citation statements)

References 13 publications

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“…Plasma sample BV1 was obtained from a patient with chronic hepatitis B. Additionally, two plasmids containing the full genomes of HBV subtypes F2 and D1 according to [47], [48] were used in this study. Plasmids were used to prepare a mixture (df7) of subtypes in a 1∶2 ratio.…”

Section: Resultsmentioning

confidence: 99%

Base-Calling Algorithm with Vocabulary (BCV) Method for Analyzing Population Sequencing Chromatograms

et al. 2013

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Sanger sequencing is a common method of reading DNA sequences. It is less expensive than high-throughput methods, and it is appropriate for numerous applications including molecular diagnostics. However, sequencing mixtures of similar DNA of pathogens with this method is challenging. This is important because most clinical samples contain such mixtures, rather than pure single strains. The traditional solution is to sequence selected clones of PCR products, a complicated, time-consuming, and expensive procedure. Here, we propose the base-calling with vocabulary (BCV) method that computationally deciphers Sanger chromatograms obtained from mixed DNA samples. The inputs to the BCV algorithm are a chromatogram and a dictionary of sequences that are similar to those we expect to obtain. We apply the base-calling function on a test dataset of chromatograms without ambiguous positions, as well as one with 3–14% sequence degeneracy. Furthermore, we use BCV to assemble a consensus sequence for an HIV genome fragment in a sample containing a mixture of viral DNA variants and to determine the positions of the indels. Finally, we detect drug-resistant Mycobacterium tuberculosis strains carrying frameshift mutations mixed with wild-type bacteria in the pncA gene, and roughly characterize bacterial communities in clinical samples by direct 16S rRNA sequencing.

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Section: Resultsmentioning

confidence: 99%

Base-Calling Algorithm with Vocabulary (BCV) Method for Analyzing Population Sequencing Chromatograms

et al. 2013

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“…Oligonucleotide primers corresponded to conservative nucleotide sequences of HBV genome coding for pre-S2 surface protein precursor (sense primer sequence 5Ј-CCATTTGTTCAGTGGTTCG-3Ј, nt positions 688-706; antisense primer sequence 5Ј-GTAAAGAGAGGTGCGCCC-3Ј, nt positions 1,542-1,525). The pHB320 recombinant plasmid DNA containing a complete hepatitis B viral genome [Bichko et al, 1982] was used as a positive control.…”

Section: Oligonucleotide Primers and Plasmid Dnamentioning

confidence: 99%

Dynamic study of HBsAg and HBeAg in saliva samples from patients with hepatitis B infection: Diagnostic and epidemiological significance

Zhevachevsky¹,

Nomokonova²,

Беклемишев³

et al. 2000

J. Med. Virol.

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Analysis of 505 cases history of patients among men with viral hepatitis demonstrates that HBV infected patients represent 68.9% of the total and that a non-parenteral rate of transmission is the most likely means of hepatitis B infection. Saliva and serum testing for the presence of specific HBV markers (HBsAg, HBeAg and HBV DNA) at different phases of the infection process were carried out to review the diagnostic and epidemiological value of saliva samples from patients with acute viral hepatitis B. The frequency of HBsAg detection by Enzyme Immune Assay (EIA) in saliva of patients in acute period was found to correlate with the frequency of its detection in serum. In early convalescence the frequency of detection of that antigen in serum (59.5% of patients) was significantly higher than in saliva (23.8%) (P < 0.001). The frequencies of HBeAg detection by EIA in saliva samples was significantly higher than that in serum samples in both acute phase (84.3% and 28.1% of patients, respectively) and in early convalescence (56.2% and 3.1% of patients, respectively). The study of frequencies of detection of these antigens in the dynamics of the disease up to the total recovery of patients (observations were carried out for the period of 60 days and longer) showed that in most patients there was a faster disappearance HBsAg from saliva than from serum. By the end of second month this antigen was detected in saliva of only 8.3% of patients whereas in serum in the same period HBsAg was detected in 33.3% of patients. HBeAg became undetectable in blood whereas HBs-antigenemia was still pronounced, and a month after the beginning of the disease it was not found in serum specimens. In saliva, HBeAg was detected in 95.8% of patients observed directly after admission. A month after the beginning of the disease it was detected in saliva of 66.7% of patients and, by the end of observation period, in 12.5% of patients recovered from viral hepatitis. HBV DNA revealed by PCR in saliva and serum of HBV-infected patients was detected in acute period not only in serum (84.6% of cases) but also in saliva (46.2% of cases). The data illustrate the diagnostic value of saliva and point to the possible role of saliva as a source of HBV infection.

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“…These two viruses which have genomes of less than 10 kilobases have been cloned using plasmid vectors (5,12,17,30 (57) and adenovirus (50). The cloned viral DNA fragments can be further digested with restriction endonueleases and then sub-cloned into plasmid vectors.…”

Section: Preparation O/ Nucleic Acid Probesmentioning

confidence: 99%

Nucleic acid probes in diagnosis of viral diseases of man

Kulski

Norval

1985

Archives of Virology

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With the recent, rapid advances in recombinant DNA technology, it has become possible to consider the use of nucleic acid probes in diagnosis of human viral diseases. Several examples are discussed which employ techniques of dot blot hybridization, sandwich hybridization and in situ hybridization. Typing of viral strains using restriction endonuclease digestion as an epidemiological tool is considered. Finally, the present limitations of molecular hybridization are discussed, and future developments including the production of non-radioactively labeled probes, are assessed.

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Restriction map of the hepatitis B virus DNA cloned in Escherichia coli

Cited by 7 publications

References 13 publications

Base-Calling Algorithm with Vocabulary (BCV) Method for Analyzing Population Sequencing Chromatograms

Base-Calling Algorithm with Vocabulary (BCV) Method for Analyzing Population Sequencing Chromatograms

Dynamic study of HBsAg and HBeAg in saliva samples from patients with hepatitis B infection: Diagnostic and epidemiological significance

Nucleic acid probes in diagnosis of viral diseases of man

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