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421954 occurrences (No.40 in the rank) during 5 years in the PubMed. [cache]

355) In this study, we determined the genomic sequences of the transmitted founder (TF) viruses from acutely infected individuals enrolled between 2005 and 2011 into IAVI protocol C in Rwanda and have compared these isolates to viruses from more recent (2016-2019) acute/early infections in three at risk populations - MSM, high risk women (HRW), and discordant couples (DC).

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PMID:34690973 DOI:10.3389/fmicb.2021.734929

2021 Frontiers in microbiology

* Increased Frequency of Inter-Subtype HIV-1 Recombinants Identified by Near Full-Length Virus Sequencing in Rwandan Acute Transmission Cohorts.

- Most studies of HIV-1 transmission have focused on subtypes B and C. In this study, we determined the genomic sequences of the transmitted founder (TF) viruses from acutely infected individuals enrolled between 2005 and 2011 into IAVI protocol C in Rwanda and have compared these isolates to viruses from more recent (2016-2019) acute/early infections in three at risk populations - MSM, high risk women (HRW), and discordant couples (DC). For the Protocol C samples, we utilized near full-length single genome (NFLG) amplification to generate 288 HIV-1 amplicons from 26 acutely infected seroconverters (SC), while for the 21 recent seroconverter samples (13 from HRW, two from DC, and six from MSM), we PCR amplified overlapping half-genomes. Using PacBio SMRT technology combined with the MDPseq workflow, we performed multiplex sequencing to obtain high accuracy sequences for each amplicon. Phylogenetic analyses indicated that the majority of recent transmitted viruses from DC and HRW clustered within those of the earlier Protocol C cohort. However, five of six sequences from the MSM cohort branched together and were greater than 97% identical. Recombination analyses revealed a high frequency (6/26; 23%) of unique inter-subtype recombination in Protocol C with 19% AC and 4% CD recombinant viruses, which contrasted with only 6.5% of recombinants defined by sequencing of the pol gene previously. The frequency of recombinants was significantly higher (12/21; 57%) in the more recent isolates, although, the five related viruses from the MSM cohort had identical recombination break points. While major drug resistance mutations were absent from Protocol C viruses, 4/21 of recent isolates exhibited transmitted nevirapine resistance. These results demonstrate the ongoing evolution and increased prevalence of recombinant and drug resistant transmitted viruses in Rwanda and highlight the importance of defining NFLG sequences to fully understand the nature of TF viruses and in particular the prevalence of unique recombinant forms (URFs) in transmission cohorts.

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(1)139 of	(11)7 prediction	(21)3 decision	(31)2 markers
(2)49 factors	(12)6 stratification	(22)3 or	(32)2 mitigation
(3)46 for	(13)5 individuals	(23)3 patients	(33)2 population
(4)21 null	(14)4 genes	(24)2 (OR	(34)2 ratio
(5)19 factor	(15)4 populations	(25)2 among	(35)2 reduction
(6)16 and	(16)4 score	(26)2 communication	(36)2 screening
(7)13 assessment	(17)4 to	(27)2 communication,	(37)2 strategies
(8)12 in	(18)4 variants	(28)2 designations
(9)8 perception	(19)3 alleles	(29)2 group
(10)7 factors,	(20)3 assessment,	(30)2 is

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--- WordNet output for risk --- =>1.損害の恐れ, 危険, 冒険, リスク, 2.危険にさらす, 3.敢えてする, 被保険者, 被保険物, 危険にさらす, 賭けてみる Overview of noun risk The noun risk has 4 senses (first 2 from tagged texts) 1. (4) hazard, jeopardy, peril, risk, endangerment -- (a source of danger; a possibility of incurring loss or misfortune; "drinking alcohol is a health hazard") 2. (2) risk, peril, danger -- (a venture undertaken without regard to possible loss or injury; "he saw the rewards but not the risks of crime"; "there was a danger he would do the wrong thing") 3. risk, risk of infection -- (the probability of becoming infected given that exposure to an infectious agent has occurred) 4. risk, risk of exposure -- (the probability of being exposed to an infectious agent) Overview of verb risk The verb risk has 2 senses (first 2 from tagged texts) 1. (8) risk, put on the line, lay on the line -- (expose to a chance of loss or damage; "We risked losing a lot of money in this venture"; "Why risk your life?"; "She laid her job on the line when she told the boss that he was wrong") 2. (2) gamble, chance, risk, hazard, take chances, adventure, run a risk, take a chance -- (take a risk in the hope of a favorable outcome; "When you buy these stocks you are gambling") --- WordNet end ---