Sequence analysis of the N genes from human metapneumovirus newly identified from children in Beijing
Bibliographic record
Abstract
Objective A new respiratory virus, human metapneumovirus (HMPV) was recently identified from nasopharyngeal aspirates collected from infants and young children with acute respiratory infections in Beijing. To understand the characteristic of the newly discovered HMPV in Beijing, the N genes from two HMPVs which were in two different gene clusters from previous investigation were analyzed. Methods Full length of N genes from HMPV were amplified from two specimens, BJ1816 and BJ1887 collected from children hospitalized for acute respiratory infections in November 2002 by reverse-transcriptase and polymerase chain reaction (RT-PCR). The two PCR amplicons were sequenced after cloning into pUCm-T and the sequences were compared with the N genes from HMPVs in GenBank. Result The N genes amplified from specimens BJ1816 and BJ1887 were 1185bp in length. The deduced N proteins were 394 amino acids in length. The nucleotide identities of BJ1816 and BJ1887 compared with those from the first reported strain by Van den Hoogen (strain HMPV00-1) and those from Canada were 86.2%-99.0% and 86.6%-97.0%, respectively. The deduced amino acid similarities were 96.2%- 99.7% and 96.4%-99.5%. Between BJ1816 and BJ1887, the homology of nucleotides and that of amino acids were 86.6% and 96.4% respectively. Phylogenetic analysis showed that BJ1816 and BJ1887 fell into two distinct genetic clusters. Conclusion The sequence analysis of the complete N genes from two samples indicates that the pathogen associated with acute respiratory infection recently described in Beijing is HMPV. HMPVs of different genotypes may co-circulate in infants and young children in Beijing.
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How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.001 | 0.001 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.001 | 0.000 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".