Six novel Y chromosome genes in Anophelesmosquitoes discovered by independently sequencing males and females

BMC Genomics

Table 3 The chromosome quotients of sequences tested for Y-linkage with PCR

Sequence name	Number of female alignments	Number of male alignments	Normalized chromosome quotient
sYG1	1	553	0.002
sYG2	0	29	0.000
sYG3	1	158	0.005
gYG1	3	1631	0.002
gYG2	2	692	0.003
gYG3	19	340	0.056
An. stephensi Y sequence 1	0	211	0.000
An. stephensi Y sequence 2	1	305	0.003
An. stephensi Y sequence 3	4	148	0.023
An. stephensi Y sequence 4	10	335	0.026
An. stephensi Y sequence 5	2	61	0.029
An. gambiae Y sequence 1	13	101	0.129

All of the sequences listed amplified a PCR product exclusively in male genomic DNA, and all have chromosome quotients less than 0.3. We made an exception for sYG2 as it only has 29 alignments from male data, and the cutoff was 30 (see Methods). Even at lower stringency, sYG2 still had no female alignments so we decided to include it. The chromosome quotients for gYG1 and gYG2 were calculated from the transcripts because of the long introns present in the genes.

ISSN: 1471-2164