Array comparative genomic hybridization analysis of Trichoderma reesei strains with enhanced cellulase production properties

Vitikainen, Marika; Arvas, Mikko; Pakula, Tiina; Oja, Merja; Penttilä, Merja; Saloheimo, Markku

doi:10.1186/1471-2164-11-441

Table 1 List of mutations in strains QM9123 and QM9414.

From: Array comparative genomic hybridization analysis of Trichoderma reesei strains with enhanced cellulase production properties

Strain	Scaffold	Probe start	Probe end	Gene ID	Element	Gene ID	Element	Position	Mutation
Deletions:
QM9123	1	2470507	2470997
QM9414	1	2469100	2470997	103044	promoter
QM9123 and QM9414	27	140136	141896	5645	IN	68956	IN
Chromosomal breakpoints:
QM9123 and QM9414	4	1190121	1190131	76018	IN			1190139	t(14;4)(118472;1190139)
QM9123 and QM9414	9	787736	787744	107460	IN			787779	t(9;27)(787779;140159)
QM9123 and QM9414	14	118442	118456	108962	promoter			118472	t(14;4)(118472;1190139)
QM9123 and QM9414	27	140136	141896	5645	IN	68956	IN	140159	t(9;27)(787779;140159)
Other mutation sites:
QM9123	1	3252872	3253411	54781	promoter	43191	IN exon
QM9123	3	918096	918096	104335	IN not spesified
QM9123	20	399356	399526	35386	IN exon
QM9123	29	346765	346765	111849	promoter
QM9123 and QM9414	2	854243	854243	120127	promoter
QM9123 and QM9414	2	1789354	1789390	2439	promoter			1789397	G→C
QM9123 and QM9414	4	117002	117002	57940	terminator
QM9123 and QM9414	4	729041	729061
QM9123 and QM9414	5	828803	828833	58910	promoter			828840	C→A
QM9123 and QM9414	12	978575	978617	108645	promoter
QM9123 and QM9414	23	31121	31157	81136	IN not specified
QM9123 and QM9414	30	199387	199481	124022	IN exon			199451	T→A
QM9123 and QM9414	37	89284	89284	70546	promoter
QM9123 and QM9414	47	49016	49036
QM9414	1	1546190	1546218	102776	IN not spesified
QM9414	1	3181743	3181743
QM9414	2	1085387	1085387
QM9414	3	376312	376322	104175	IN exon
QM9414	3	912317	912361	104333	IN exon			912380-912381	TG→CT
QM9414	7	762504	762526	60508	IN intron
QM9414	8	974648	974656	77661	IN exon			974677-974680	CCGA→ -
QM9414	10	159309	159309	62633	IN intron			159325	T→C
QM9414	10	428575	428613	122036	promoter	78306	promoter	428617	G→ -
QM9414	10	576565	576565	33895	promoter
QM9414	12	579085	579111	108540	terminator			579119	T→A
QM9414	13	823316	823352					823320	A→T
QM9414	14	762016	762016
QM9414	15	319892	319892	109278	promoter
QM9414	15	442981	443029	109313	promoter	65232	promoter	443038-443046	GAGCCACGA → -
QM9414	15	448781	448781	65021	IN exon
QM9414	15	657953	657953	65141	IN exon
QM9414	15	726115	726115	79813	IN intron
QM9414	21	7038	7038	23028	IN exon
QM9414	28	160600	160622	111645	IN exon
QM9414	33	152065	152065	52499	promoter
QM9414	35	66085	66115					66115-66118	AAAT→ -
QM9414	54	27950	27986	124295	promoter			27990-27993	CTTT→-

Strain: the strain(s) in which mutation has been identified, scaffold: scaffold number, probe start and probe end: coordinates of the probe in which the mutation is seen (probe start is the first probe and probe end is the last probe in which the mutation is seen), gene id: the gene according to the protein id in T. reesei database v2.0 [17]. Gene id is included if a mutation is considered to be located in one of the gene elements: coding region (IN), promoter or terminator. IN exon or IN intron is marked if the site is sequenced or if the probe coordinates allow reliable location of a mutation site in the exon/intron. If the probe coordinates hit near an exon/intron boundary it is marked as IN not specified. Note that a mutation may affect two genes. Position: the exact coordinate of the mutation if sequenced. Mutation: description of the mutation (t(x;x)(y;y) is a translocation and Δ a deletion).

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ISSN: 1471-2164

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