Identification of AflR Binding Sites in the Genome of <i>Aspergillus flavus</i> by ChIP-Seq
We report here the AflR binding motif of <i>Aspergillus flavus</i> for the first time with the aid of ChIP-seq analysis. Of the 540 peak sequences associated with AflR binding events, 66.8% were located within 2 kb upstream (promoter region) of translational start sites. The identified 1...
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MDPI AG
2020-04-01
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| Series: | Journal of Fungi |
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| Online Access: | https://www.mdpi.com/2309-608X/6/2/52 |
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| author | Qing Kong Perng-Kuang Chang Chunjuan Li Zhaorong Hu Mei Zheng Quanxi Sun Shihua Shan |
| author_facet | Qing Kong Perng-Kuang Chang Chunjuan Li Zhaorong Hu Mei Zheng Quanxi Sun Shihua Shan |
| author_sort | Qing Kong |
| collection | DOAJ |
| description | We report here the AflR binding motif of <i>Aspergillus flavus</i> for the first time with the aid of ChIP-seq analysis. Of the 540 peak sequences associated with AflR binding events, 66.8% were located within 2 kb upstream (promoter region) of translational start sites. The identified 18-bp binding motif was a perfect palindromic sequence, 5′-CSSGGGWTCGAWCCCSSG’3′ with S representing G or C and W representing A or T. On closer examination, we hypothesized that the 18-bp motif sequence identified contained two identical parts (here called motif A and motif B). Motif A was in positions 8–18 on the upper strand, while motif B was in positions 11-1 on the bottom strand. The inferred length and sequence of the putative motif identified in <i>A. flavus</i> were similar to previous findings in <i>A. parasiticus</i> and <i>A. nidulans</i>. Gene ontology analysis indicated that AflR bound to other genes outside the aflatoxin biosynthetic gene cluster. |
| first_indexed | 2024-03-10T20:19:42Z |
| format | Article |
| id | doaj.art-d81f0b457a464ab5a9c3ee8338661236 |
| institution | Directory Open Access Journal |
| issn | 2309-608X |
| language | English |
| last_indexed | 2024-03-10T20:19:42Z |
| publishDate | 2020-04-01 |
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| record_format | Article |
| series | Journal of Fungi |
| spelling | doaj.art-d81f0b457a464ab5a9c3ee83386612362023-11-19T22:19:16ZengMDPI AGJournal of Fungi2309-608X2020-04-01625210.3390/jof6020052Identification of AflR Binding Sites in the Genome of <i>Aspergillus flavus</i> by ChIP-SeqQing Kong0Perng-Kuang Chang1Chunjuan Li2Zhaorong Hu3Mei Zheng4Quanxi Sun5Shihua Shan6School of Food Science and Engineering, Ocean University of China, Qingdao 266003, ChinaSouthern Regional Research Center, Agricultural Research Service, US Department of Agriculture, New Orleans, LA 70124, USAShandong Peanut Research Institute, Qingdao 266110, ChinaState Key Laboratory for Agrobiotechnology and Key Laboratory of Crop Heterosis and Utilization (MOE), Department of Plant Genetics and Breeding, China Agricultural University, Beijing 100193, ChinaState Key Laboratory for Agrobiotechnology and Key Laboratory of Crop Heterosis and Utilization (MOE), Department of Plant Genetics and Breeding, China Agricultural University, Beijing 100193, ChinaShandong Peanut Research Institute, Qingdao 266110, ChinaShandong Peanut Research Institute, Qingdao 266110, ChinaWe report here the AflR binding motif of <i>Aspergillus flavus</i> for the first time with the aid of ChIP-seq analysis. Of the 540 peak sequences associated with AflR binding events, 66.8% were located within 2 kb upstream (promoter region) of translational start sites. The identified 18-bp binding motif was a perfect palindromic sequence, 5′-CSSGGGWTCGAWCCCSSG’3′ with S representing G or C and W representing A or T. On closer examination, we hypothesized that the 18-bp motif sequence identified contained two identical parts (here called motif A and motif B). Motif A was in positions 8–18 on the upper strand, while motif B was in positions 11-1 on the bottom strand. The inferred length and sequence of the putative motif identified in <i>A. flavus</i> were similar to previous findings in <i>A. parasiticus</i> and <i>A. nidulans</i>. Gene ontology analysis indicated that AflR bound to other genes outside the aflatoxin biosynthetic gene cluster.https://www.mdpi.com/2309-608X/6/2/52AflR<i>Aspergillus flavus</i>ChIP-seqbinding motifgene regulation |
| spellingShingle | Qing Kong Perng-Kuang Chang Chunjuan Li Zhaorong Hu Mei Zheng Quanxi Sun Shihua Shan Identification of AflR Binding Sites in the Genome of <i>Aspergillus flavus</i> by ChIP-Seq Journal of Fungi AflR <i>Aspergillus flavus</i> ChIP-seq binding motif gene regulation |
| title | Identification of AflR Binding Sites in the Genome of <i>Aspergillus flavus</i> by ChIP-Seq |
| title_full | Identification of AflR Binding Sites in the Genome of <i>Aspergillus flavus</i> by ChIP-Seq |
| title_fullStr | Identification of AflR Binding Sites in the Genome of <i>Aspergillus flavus</i> by ChIP-Seq |
| title_full_unstemmed | Identification of AflR Binding Sites in the Genome of <i>Aspergillus flavus</i> by ChIP-Seq |
| title_short | Identification of AflR Binding Sites in the Genome of <i>Aspergillus flavus</i> by ChIP-Seq |
| title_sort | identification of aflr binding sites in the genome of i aspergillus flavus i by chip seq |
| topic | AflR <i>Aspergillus flavus</i> ChIP-seq binding motif gene regulation |
| url | https://www.mdpi.com/2309-608X/6/2/52 |
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