Gammaherpesvirus infection modulates the temporal and spatial expression of SCGB1A1(CCSP) and BPIFA1 (SPLUNC1) in the respiratory tract Gail H. Leeming,

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Gammaherpesvirus infection modulates the temporal and spatial expression of SCGB1A1(CCSP) and BPIFA1 (SPLUNC1) in the respiratory tract Gail H. Leeming, Anja Kipar, David J. Hughes, Lynne Bingle, Elaine Bennett, Nathifa Moyo, Ralph A. Tripp, Alison Bigley, Colin D. Bingle, Jeffery T. Sample, James P. Stewart Figure E1 Alignment of SCGB1A1 amino-acid sequences The amino-acid sequences of SCGB1A1 from a number of mammalian species were compared using BLAST 1 and ClustalW 2.0 2 and the Clustal output was represented diagrammatically using and Boxshade 3.21 (www.ch.EMBnet.org). Rodent sequences are on the top 5 lines and other species below with a consensus sequence last. Black text on light grey represents residues conserved in rodents, white text on dark grey represents residues conserved between species and white text on mid-grey represents residues that are semi-conserved. The SCGB1A1 sequences used for analysis are conceptual translations from the mRNA sequences held in Genbank as follows: Wood mouse (Apodemus sylvaticus) HM008619.1, House mouse (Mus musculus) NM_011681.2, Rat (Rattus norvegicus) BC069174.1, Hamster (Mesocricetus auratus) L37041.1, Volcano mouse (Neotomodon alstoni) AJ583234.1, Rabbit (Oryctolagus cuniculus) NM_001082237.1, Hare (Lepus capensis) M25609.1, Guinea Pig (Cavia porcellus) XM_003467858.1, Cow (Bos Taurus) NM_001076976.2, Human (Homo sapiens) NM_003357.3. The sequences of the following were from gene prediction on Ensembl: Squirrel (Sciurus vulgaris) ENSSTOG00000010085, Shrew (Sorex araneus) ENSSARG00000009790.

Figure E2

Figure E2: Alignment of BPIFA1 amino-acid sequences The amino-acid sequence of BPIFA1 from wood mouse was compared with equivalent sequences from a number of mammalian species using BLAST, 1 and ClustalW2.0 2 and the Clustal output was represented diagrammatically using and Boxshade3.21 (www.ch.EMBnet.org). White text on dark grey represents residues conserved between species and white text on mid-grey represents residues that are semi-conserved. The BPIFA1 sequences used for analysis are conceptual translations from the mRNA sequences held in Genbank as follows: Wood mouse (Apodemus sylvaticus) HM008620, House mouse (Mus musculus) NM_011126.3, Rat (Rattus norvegicus) NM_172031.1, Hamster (Cricetulus griseus) XM_003512019.1, Chinchilla (Chinchilla lanigera) FJ830605.1, Cow (Bos Taurus) BC114803.1, Human (Homo sapiens) NM_016583.3. The Kangaroo rat (Dipodomys ordii) sequence was from an Ensembl gene prediction ENSDORP00000002137 REFERENCES 1 Altschul SF, Madden TL, Schaffer AA, et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997;25(17):3389-3402. 2 Larkin MA, Blackshields G, Brown NP, et al. Clustal W and Clustal X version 2.0. Bioinformatics 2007;23(21):2947-2948.