High-throughput genome sequencing of lichenizing fungi to assess gene loss in the ammonium transporter/ammonia permease gene family

Table 3 Statistics on the raw data for eight lichen genomes

	Acarospora strigata	Arthonia rubrocincta
Total sequences	80464902	103562964
first 30 bases high quality	36326870	44129871
first 50 bases high quality	31585425	36870361
first 70 bases high quality	27701126	30691804
all 75 bases high quality	26289676	28531448
Estimated high quality coverage	68×	82×
	*Dibaeis baeomyces* ^M	*Endocarpon pallidulum*
Total sequences	243144702	92018336
first 30 bases high quality	128915320	43595646
first 50 bases high quality	113229286	38937482
first 70 bases high quality	99892761	35132351
all 75 bases high quality	94764211	33697486
Estimated high quality coverage	80×	81×
	*Graphis scripta*	*Leptogium austroamericanum* ^M
Total sequences	92331310	204893442
first 30 bases high quality	42665651	93698059
first 50 bases high quality	37267191	77111438
first 70 bases high quality	32664052	66199646
all 75 bases high quality	30956142	62669378
Estimated high quality coverage	173×	148x
	*Peltula cylindrica* ^M	*Physcia cf. stellaris* ^M
Total sequences	152251382	201984964
first 30 bases high quality	79517806	90751190
first 50 bases high quality	67269367	78374611
first 70 bases high quality	57821683	68425794
all 75 bases high quality	28531448	64745297
Estimated high quality coverage	126×	57×

^M = metagenome. Estimated high quality coverage calculated by dividing the number of reads with at least the first 30 bases of high quality by the estimated genome size (of cultured fungi) or genome sizes (of lichenizing fungus and lichenizing alga or cyanobacterium but excluding the associated microbial community, and therefore overestimating coverage).

ISSN: 1471-2164