reassortment database

[gsgs]

a database of influenza reassortments is needed !

let's make a list, so to find the most likely candidates
for M**flu reassortments

AFAIK there is no overall such list, but some papers are published for special
cases or reassortments in the past.
Please help to search for these and to complete the collection


year
reassorting strains
reassortment-type
differences in the 8 segments between the reassortant and the first reassortanting strain in 1/100%

1957: 1918H1N1(a)+avian H2N2(b)    :  abababaa     6,175,  3,358,  6,489,  5,  7
1968: 1957H2N2+avian H3N2          :  ababaaaa    34, 50, 29,484, 21, 33,  9, 25    
1969: 1968H3N2 + H2N2              :  aabaabbb     2,  3, 27,  5,  1, 23, 17, 15
1971:                              :  abaaabbb
1972: 1968H3N2 + H2N2              :  bababcaa    27,  9, 29, 23, 28, 35, 13, 14
2002: 1972H3N2 + 1977H1N1          :  aaabaaaa    46, 57, 49,475, 52, 80, 41, 44

1998: swine  "triple reassortant"

2006: CEID23=  swine+avian   : baaaaaaa
      H2N3 CEID23 +avian H2N3    :  aabbabaa 

2007?: swine H3N1
2009: sw1998+swEU                  :  aaaaabba

 

[AlaskaDenise]

Re: reassortment database

Since you're showing reassorts, wouldn't it make more sense to track similarities, since a reassorted segment is the same as an earlier sequence?

.

 

[gsgs]

Re: reassortment database

still only one google-hit for "reassortment database"


reassortments are not so often, and they are essential for
influenza-evolution so it makes sense to store them,
analyze them, tabulize them.

Species jumping and pandemics are usually caused by reassortments.

Analyzing flu evolution in all 8 segments is often difficult and confusing
because of reassortments. Resolve the confusion once and
document it for others so it's easier for them.

Also a tool where you can enter a flu-virus and the database
gives ancestry in all 8 segments.
Make one hypothetical=calculated/estimated genome
for each reassortment

so any new virus can easily be checked for its reassortment-type

 

[gsgs]

Re: reassortment database

see also this thread:
http://www.flutrackers.com/forum/showthread.php?t=203696
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idea: walk through the papers and extract the
reassortment-sequences from it
------------------------------------
idea: systematically search all flu-genomes for reassortments and
calculate the likely reassorting-event-parents and child
and store them
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we should also store how well the genomes spread in what
immunity-surrounding and its virulences (estimates)
humans,cell-cultures,animals

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process/evaluate/examine the database for similarities,patterns,
statistics to predict which genomes reassort how well with which others

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also make a passages database, what mutations develope after
passages in ferrets,mice,cell-cultures