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Interim report on two clusters of the novel influenza A (H1N1) infection in Osaka Prefecture

Interim report on two clusters of the novel influenza A (H1N1) infection in Osaka Prefecture, 21th May, 2009


Infectious Disease Surveillance Center, National Institute of Infectious Diseases

Deep appreciation for the cooperation and support to the members and staffs of Osaka City General Hospital, Toyonaka Municipal Hospital, Sakai Municipal Hospital, Osaka City, Osaka Prefecture and public health centers.


Background

The majority of the novel influenza A (H1N1) virus infection reported from Osaka area was consolidated to several schools. As of 20th May, 99 confirmed cases have been reported, of which 64 were from a single private integrating junior and senior high school. Since 18th May, the prefecture changed policy of compulsory hospitalization to the treatment at home for most of the patients based on clinical indication. Here we report clinical information based on profiles obtained from two clusters (previously mentioned private school and nearby elementary school), 69 cases investigated.


Cluster 1

setting: integrating junior and senior high school, with 1,934 students and 143 teachers
study population is 64 confirmed cases ( 59 high school students, 2 junior highs students, 3 teachers), male 49, female 15
median of age 16 y.o. (range: 13 to 53)
no oversea travel history reported after April 2009
18 hospitalized and 46 medical observation at home
commute from wide areas ( e.g. Northern Osaka to western Kobe)
school bus available but crowded
<Course> From 11th May, increased reporting of fever cases observed with focus in the sophomore of high school. Twenty absentees were reported among sophomore on 12th May and then increased to 36 on the next day. Temporary whole grade closure was in place from 13th to 15th following the seasonal influenza procedures. On 16th, samples from influenza A positive students sent off for RT-PCR to public health laboratory and then to National Institute of infectious Diseases given a case confirmation from adjacent Kobe city.

<Data collection> Survey was carried out to 18 hospitalized patients by direct face-to-face interview and to 46 home-quarantined patients on the telephone by school teachers with our technical assistance.

<Symptoms and treatment> Almost all of the cases presented clinical features compatible to seasonal influenza. No case was reported to be under serious condition. In some cases, respiratory symptom and/or vomit preceded high fever by few days.

Antiviral medication was given to all hospitalized cases, oseltamivir to 12 patients and zanamivir to the remained 6. All cases recovered relatively quickly and uneventfully.

090529_IDSC_01e.gif



Cluster2

elementary school, 624 students
study population is 5 confirmed cases , male 2 , female 3
age distribution (one 9 y.o., three 11 y.o., one 12 y.o)
no underline condition noted
<Course> On 16th May, sixth grade female student visited weekend care clinic and diagnosed as influenza A positive by rapid kit test. Zanamivir was prescribed and her ample was sent to regional public health laboratory for further diagnosis. A case was confirmed on 17th and increased to 5 until 19th.

<Symptoms and treatment> Cluster reported from elementary school is still rare in Japan. No case was reported to be under serious condition and recovered relatively quickly and uneventfully after diagnosis. In two cases, respiratory symptom preceded high fever by few days.


090529_IDSC_02e.gif


Rapid test results

Sensitivity of the rapid test change by the Day examined, peaked on the Day1 and relatively low on Day0 and Day2. The effectiveness of the rapid test kit is not able to determine by the data presented here because of insufficient information (e.g. type of kit used). However, excluding novel influenza A (H1N1) only by the result of rapid kit test may be premature decision.

Table3.Rapid kit test results of RT-PCR positive confirmed cases of novel influenza A (N1H1)(N=23)

090529_IDSC_03e.gif


(2009/5/29 IDSC)
*******************************************
This is the original report discussed in:

1) post #1 in "30% of new-flu cases initially tested negative" thread by Shiloh of the present forum
2) post #105 in "Aso calls for calm response as new flu infections reach 368 in Japan" in the 2009 H1N1 FLU NEWS forum
3) post #18 in "False Negative on Influenza A Nasal Swab?" in The Pandemic Discussion Forum > FluTrackers Expertise - Questions and Answers


____________________________________________
SN1987A
 
Re: Interim report on two clusters of the novel influenza A (H1N1) infection in Osaka Prefecture

HA and NA from 9 Japan viruses were just released, 4 from Osaka,
1 from Kobe,2 from Hyohu,2 from Amagasaki.

All seem to be related to A/Korea/1 rather than A/Narita/1

------edit-----------
well, only one mutation shared with Korea so the connection is far-fetched.
More segments are released - all 9 viruses very similar , it's an own strain
not seen elsewhere in the world
and it is probably since weeks/months in Japan.
 
Re: Interim report on two clusters of the novel influenza A (H1N1) infection in Osaka Prefecture

------edit-----------
well, only one mutation shared with Korea so the connection is far-fetched.
More segments are released - all 9 viruses very similar , it's an own strain
not seen elsewhere in the world
and it is probably since weeks/months in Japan.
__________________
 
Re: Interim report on two clusters of the novel influenza A (H1N1) infection in Osaka Prefecture

segments 5 and 8 are now uploaded to genbank.

They have G659A in segment 8 !

Just as A/Korea/01/2009-05-02 has.
So I have to revise my opinion again and I do see
evidence of Korean origin of the Japanese viruses,
which all are very similar
except maybe A/Narita/1,

same group as A/Mexico/4604/2009-04-19
but that virus has already C1408T in segment 4
and A742G in segment 6,
so Korea/01 should be earlier.
And preserved.
Maybe in frozen pork.


I speculate that these viruses were introduced
into Japan in early April, maybe through imported (frozen ?)
pork from Mexico. Then delivered to these students
from the same ship from Mexico (via Korea ?)


--------------------------------


Code:
                                    1   2   3   4   5   6   7   8   9  10  11  12  13  14  15   PB2 PB1  PA  HA  NP  NA   M  NS
-----------------------------------------------------------------------------------------------------------------------------------------
  1 >A/Mexflu/index/2009-02-01      0   6   7   3  10   9  11  11  10  13  11  12   9   8   9     6   7   5   1  11   9   2   9     6#    8   12838   5528      1:>A/Mexflu/index/2009-02-01   
  2 >A/Beijing/01/2009/05/16        6   0   5   4  16  15  17  17  16  19  17  18  15  14  15     9  10  12   1  11  14  11   9    10#   12   12838   5531      2:>A/Beijing/01/2009/05/16     
  3 >A/Narita/1/2009/05/08          7   5   0   5  17  16  18  18  17  20  18  19  16  15  16     9  10  12   1  16  20   2   9    10#   13   12838   5532      3:>A/Narita/1/2009/05/08       
  4 >A/Arizona/01/2009/04/22        3   4   5   0   9   9  10  11  10  11  11  11   9  10  11     9   0   0   1  16  15   2   9     9#    8    8713   5409      4:>A/Arizona/01/2009/04/22     
  5 >A/Osaka-C/1/2009/05/16        10  16  17   9   0   1   3   3   2   5   3   4   1  10  13     4   8   4   1   4   6   2   5     5#    6   12838   5532      5:>A/Osaka-C/1/2009/05/16      
  6 >A/Osaka-C/2/2009/05/17         9  15  16   9   1   0   2   2   1   4   2   3   0   9  12     4   4   4   1   4   6   2   5     4#    5   12838   5533      6:>A/Osaka-C/2/2009/05/17      
  7 >A/Amagasaki/1/2009//          11  17  18  10   3   2   0   4   3   6   4   5   2  11  14     4   8   4   7   4   6   2   5     5#    7   12838   5533      7:>A/Amagasaki/1/2009//        
  8 >A/Hyogo/1/2009/05/17          11  17  18  11   3   2   4   0   3   6   4   5   2  11  14     4   4   4   1   4  12   2  15     5#    7   12838   5533      8:>A/Hyogo/1/2009/05/17        
  9 >A/Osaka/2/2009/05/16          10  16  17  10   2   1   3   3   0   5   3   4   1  10  13     4   4   4   7   4   6   2   5     5#    6   12838   5533      9:>A/Osaka/2/2009/05/16        
 10 >A/Kobe/1/2009//               13  19  20  11   5   4   6   6   5   0   6   7   4  13  16     8   4  12   1   4   6   2  15     7#    9   12838   5533     10:>A/Kobe/1/2009//             
 11 >A/Hyogo/2/2009/05/17          11  17  18  11   3   2   4   4   3   6   0   5   2  11  14     8   4   4   1   4   6  11   5     5#    7   12830   5535     11:>A/Hyogo/2/2009/05/17        
 12 >A/Osaka/1/2009/05/16          12  18  19  11   4   3   5   5   4   7   5   0   3  12  15     4   8   4   7   4   6  11   5     6#    8   12781   5530     12:>A/Osaka/1/2009/05/16        
 13 >A/Amagasaki/2/2009//           9  15  16   9   1   0   2   2   1   4   2   3   0   9  12     4   4   4   1   4   6   2   5     4#    5   12838   5533     13:>A/Amagasaki/2/2009//        
 14 >A/Korea/01/2009/05/02          8  14  15  10  10   9  11  11  10  13  11  12   9   0  11     6   7   9   7   4  18   2   5     7#   10   12833   5533     14:>A/Korea/01/2009/05/02       
 15 >A/Mexico/4604/2009/04/19       9  15  16  11  13  12  14  14  13  16  14  15  12  11   0     6   7   9   7  10  18  11   9     9#   12   12838   5529     15:>A/Mexico/4604/2009/04/19    
----------------------------------------------------------------------------------------------------------------------------------------------------
                                    1   2   3   4   5   6   7   8   9  10  11  12  13  14  15     5   5   6   3   6  10   4   7


                                 01122 011122 000001 01111 00001 000000001 000 000 
                                 57911 609900 678891 51446 02231 333366791 134 567 
                                 41445 350103 128937 06058 65984 158935457 146 356 
                                 61523 681001 605269 51859 41843 641301256 134 299 
-codon-position------------------ 11 2  2222  1  1   1 1   121   1     11   12 121 
---Index-------------------------GTGCA GAATTA GCGGGT GTCCA GGGTG GGGCCGAAT AGC GGT 
  1 >A/Mexflu/index/2009-02-01   ..... ...... ...... ..... ..... ......... ... ...        0      0 ,      0      0      1:>A/Mexflu/index/2009-02-01   
  2 >A/Beijing/01/2009/05/16     A.... .G.... AT.... ..... ..... .A....... .A. ...        6      6 ,      6      6      2:>A/Beijing/01/2009/05/16     
  3 >A/Narita/1/2009/05/08       A.... .G.... .TA... ..... A.... .A......C ... ...        7      7 ,      7      7      3:>A/Narita/1/2009/05/08       
  4 >A/Arizona/01/2009/04/22     A.... ------ ------ ..... .A... ...T..... ... ...       15     15 ,      3      3      4:>A/Arizona/01/2009/04/22     
  5 >A/Osaka-C/1/2009/05/16      .CA.. A..CC. ....A. ..... ..A.A A........ ... .A.       10     10 ,     10     10      5:>A/Osaka-C/1/2009/05/16      
  6 >A/Osaka-C/2/2009/05/17      .CA.. A...C. ....A. ..... ..A.A A........ ... .A.        9      9 ,      9      9      6:>A/Osaka-C/2/2009/05/17      
  7 >A/Amagasaki/1/2009//        .CA.. A...CT ....A. .A... ..A.A A........ ... .A.       11     11 ,     11     11      7:>A/Amagasaki/1/2009//        
  8 >A/Hyogo/1/2009/05/17        .CA.. A...C. ....A. ..... ..A.A A....A... ... .AC       11     11 ,     11     11      8:>A/Hyogo/1/2009/05/17        
  9 >A/Osaka/2/2009/05/16        .CA.. A...C. ....A. ...T. ..A.A A........ ... .A.       10     10 ,     10     10      9:>A/Osaka/2/2009/05/16        
 10 >A/Kobe/1/2009//             .CA.G A...C. ....A. ..... ..A.A A........ ... AA.       11     11 ,     11     11     10:>A/Kobe/1/2009//             
 11 >A/Hyogo/2/2009/05/17        .CAA. A...C. ....A. ..... ..A.A A........ ..T .A.       11     11 ,     11     11     11:>A/Hyogo/2/2009/05/17        
 12 >A/Osaka/1/2009/05/16        .CA.. A.G.C. ....A. A.... ..A.A A........ ... .A.       11     11 ,     11     11     12:>A/Osaka/1/2009/05/16        
 13 >A/Amagasaki/2/2009//        .CA.. A...C. ....A. ..... ..A.A A........ ... .A.        9      9 ,      9      9     13:>A/Amagasaki/2/2009//        
 14 >A/Korea/01/2009/05/02       ..... ...... ...A.. ....G ..A.A A...A..C. ... .A.        8      8 ,      8      8     14:>A/Korea/01/2009/05/02       
 15 >A/Mexico/4604/2009/04/19    ..... ...... .....C ..T.. ..ACA A.A...G.. T.. ...        9      9 ,      9      9     15:>A/Mexico/4604/2009/04/19    
                                                                                   
---Index-------------------------GTGCA GAATTA GCGGGT GTCCA GGGTG GGGCCGAAT AGC GGT 
-codon-position------------------ 11 2  2222  1  1   1 1   121   1     11   12 121 
                                 01122 011122 000001 01111 00001 000000001 000 000 
                                 57911 609900 678891 51446 02231 333366791 134 567 
                                 41445 350103 128937 06058 65984 158935457 146 356 
                                 61523 681001 605269 51859 41843 641301256 134 299
 
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