Kategorie |
Textpublikation |
Referenztyp |
Zeitschriften |
DOI |
10.1111/nph.12317
|
Volltext |
Shareable Link |
Titel (primär) |
OakContigDF159.1, a reference library for studying differential gene expression in Quercus robur during controlled biotic interactions: use for quantitative transcriptomic profiling of oak roots in ectomycorrhizal symbiosis |
Autor |
Tarkka, M.T.; Herrmann, S.; Wubet, T.
; Feldhahn, L.; Recht, S.; Kurth, F.; Mailänder, S.; Bönn, M.; Neef, M.; Angay, O.; Bacht, M.; Graf, M.; Maboreke, H.; Fleischmann, F.; Grams, T.E.E.; Ruess, L.; Schädler, M.
; Brandl, R.; Scheu, S.; Schrey, S.D.; Grosse, I.; Buscot, F. |
Quelle |
New Phytologist |
Erscheinungsjahr |
2013 |
Department |
BZF; BOOEK |
Band/Volume |
199 |
Heft |
2 |
Seite von |
529 |
Seite bis |
540 |
Sprache |
englisch |
Keywords |
de novo assembly;herbivory;multitrophic interactions;mutualism;mycorrhiza;pathogenesis;Quercus robur ;transcriptome |
UFZ Querschnittsthemen |
RU1 |
Abstract |
- Oaks (Quercus spp.), which are major forest trees in the northern
hemisphere, host many biotic interactions, but molecular investigation of these
interactions is limited by fragmentary genome data. To date, only 75 oak
expressed sequence tags (ESTs) have been characterized in ectomycorrhizal (EM)
symbioses.
- We synthesized seven beneficial and detrimental biotic interactions between
microorganisms and animals and a clone (DF159) of Quercus robur.
Sixteen 454 and eight Illumina cDNA libraries from leaves and roots were
prepared and merged to establish a reference for RNA-Seq transcriptomic analysis
of oak EMs with Piloderma croceum.
- Using the Mimicking Intelligent Read Assembly (MIRA) and Trinity assembler,
the OakContigDF159.1 hybrid assembly, containing 65 712 contigs with a mean
length of 1003 bp, was constructed, giving broad coverage of metabolic pathways.
This allowed us to identify 3018 oak contigs that were differentially expressed
in EMs, with genes encoding proline-rich cell wall proteins and ethylene
signalling-related transcription factors showing up-regulation while auxin and
defence-related genes were down-regulated.
- In addition to the first report of remorin expression in EMs, the extensive
coverage provided by the study permitted detection of differential regulation
within large gene families (nitrogen, phosphorus and sugar transporters,
aquaporins). This might indicate specific mechanisms of genome regulation in oak
EMs compared with other trees.
|
dauerhafte UFZ-Verlinkung |
https://www.ufz.de/index.php?en=20939&ufzPublicationIdentifier=13681 |
Tarkka, M.T., Herrmann, S., Wubet, T., Feldhahn, L., Recht, S., Kurth, F., Mailänder, S., Bönn, M., Neef, M., Angay, O., Bacht, M., Graf, M., Maboreke, H., Fleischmann, F., Grams, T.E.E., Ruess, L., Schädler, M., Brandl, R., Scheu, S., Schrey, S.D., Grosse, I., Buscot, F. (2013):
OakContigDF159.1, a reference library for studying differential gene expression in Quercus robur during controlled biotic interactions: use for quantitative transcriptomic profiling of oak roots in ectomycorrhizal symbiosis
New Phytol. 199 (2), 529 - 540 10.1111/nph.12317 |