Open Access Research article

A novel MSMB-related microprotein in the postovulatory egg coats of marsupials

Stephen Frankenberg*, Jane Fenelon, Bonnie Dopheide, Geoff Shaw and Marilyn B Renfree

Author Affiliations

ARC Centre of Excellence for Kangaroo Genomics and Department of Zoology, University of Melbourne, Parkville, Victoria, Australia

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BMC Evolutionary Biology 2011, 11:373  doi:10.1186/1471-2148-11-373

Published: 30 December 2011

Additional files

Additional file 1:

Alignment of translated sequences of selected members of the USM/MSMB/MSMP family. Protein sequences are grouped according to sub-family. Boundaries between regions encoded by Exons 2, 3 and 4 are indicated by orange lines. Shading indicates identity in at least 50% of sequences. The predicted signal peptide cleavage site for USM orthologues is indicated by an arrowhead.

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Additional file 2:

Sources of sequences used in this study. Transcript sequence sources are provided either as GenBank or UniGene accession numbers. Coding regions predicted from this study are defined by nucleotide ranges within genomic sequences, either from genome builds or whole genome shotgun scaffolds or contigs, as specified. Exons 1-4 refer for MSMP are defined for ease of comparison by their homology with Exons 1-4 of human MSMB.

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Additional file 3:

Phylogenetic tree of microproteins from chordates using an alignment of protein sequences. The unrooted tree was constructed by aligning translated sequences homologous to Exons 3-4 of mouse Msmb and subjecting the alignment to the program Protpars (Phylip) followed by Drawtree. Most branch points do not yield significant bootstrap values using various methods (not shown), but sequences generally cluster into the three groups highlighted. Accordingly, the position of zebrafish usmh1 in the tree is unlikely to reflect its true phylogeny, as predicted by its conserved synteny.

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Additional file 4:

Amino acid identity and similarity matrices for avian MSMB1, MSMB2 and MSMB3 and mouse Msmb. Highlighted cells refer to values cited in the text. Yellow: percentage identities between each zebra finch paralogue and its orthologues in other species are highest for MSMB3. Blue: percentage identities between the turkey and chicken orthologues of each paralogue are also highest for MSMB3. Orange: mouse Msmb shows higher identity to MSMB2 than to either MSMB1 or MSMB3.

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