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| Status |
Public on Mar 23, 2023 |
| Title |
Orphan elements are clustered with allorecognition loci and likely involved in incompatibility and speciation in Neurospora |
| Organism |
Neurospora crassa |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Orphan genes have been attributed to gene duplication followed by fast divergence, horizontal gene transfer, relocation and rearrangement, and to expression of previously non-coding sequences abundant with long repeats. However, their roles are less well described and there is a lack of working hypotheses that would guide the investigation of orphan genes. For 670 Neurospora orphan genes identified in this study, over 63% form clusters that aggregate adjacent to the telomeres and are clustered with up to 61% het-like genes, which regulate self-recognition and define vegetative compatibility groups (VCGs). Based on transcriptomic data from N. crassa grwoth and reproduction under various conditions, 342 orphan genes are dynamically expressed during both the sexual and asexual growth. Among them, 37% respond to common carbon resources, and 64% respond to non-preferred carbon sources such as furfural and HMF — wildfire-produced chemical that are a strong inducer of sexual development in N. crassa. Expression of a significant portion of the orphan genes was sensitive to light and temperature that regulate fungal activities and distributions. Orphan genes and clustered het-like genes respond similarly to mutation in transcription factors adv-1 and pp-1 that regulate cell communications, and expression of a significant portion of the orphan genes was affected in a mating locus mutant. Coordinate expression in orphan-het gene clusters was observed during early hyphal branching. functional interactions between orphan and het-like genes are likely contribute to the vegetative incompatibilit and possibly promote crossings betwen VCG groups guided by sexual incompatibilities. Orphan genes’ involvements in the balance between genome homogeneity and heterogeneity in VCG genotypes as well as in the speciation could be essential and make them potential targets to control fungal growth for good and bad.
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| Overall design |
RNAs were extract from mat 1-2-1 mutant (FGSC#4564, mat a[m1]s-3B cyh-1) for six-day cultures on synthetic crossing medium (SCM), when protoperithecia were ripen and two hours after crossing with wild type conidia from FGSC#2489. Transcriptome profiles were compared between wildtype strain and mating locus mat 1-2-1 mutant.
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| Contributor(s) |
Wang Z, Lopez-Giraldez F, Townsend JP |
| Citation missing |
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| |
| Submission date |
Mar 23, 2022 |
| Last update date |
Mar 23, 2023 |
| Contact name |
Francesc Lopez |
| E-mail(s) |
francesc.lopez@yale.edu
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| Organization name |
Yale University
|
| Department |
Department of Genetics
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| Lab |
YCGA
|
| Street address |
P.O. Box 27386
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| City |
West Haven |
| State/province |
CT |
| ZIP/Postal code |
06516 |
| Country |
USA |
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| Platforms (1) |
| GPL26551 |
Illumina NovaSeq 6000 (Neurospora crassa) |
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| Samples (5)
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| Relations |
| BioProject |
PRJNA819070 |
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