Improve Research Reproducibility A Bio-protocol resource
Concise Method
tooltip

Identification of bHLH transcription factors for strawberry

FZ Fengli Zhao
GL Gang Li
PH Panpan Hu
XZ Xia Zhao
LL Liangjie Li
WW Wei Wei
JF Jiayue Feng
HZ Houcheng Zhou
request Request a Protocol
ask Ask a question
Favorite

To identify bHLH transcription factors in the strawberry genome (F. vesca), we performed a search from the NCBI database (F. vesca (taxid:57918)) (https://www.ncbi.nlm.nih.gov/genome/3314). The published Arabidopsis and strawberry bHLH protein sequences were downloaded from the Plant Transcription Factor Database (http://planttfdb.cbi.pku.edu.cn/) and used as queries in BLAST-P searches with default parameters in NCBI database. To further validate all bHLH transcription factors, full-length amino acid sequences of the 166 putative candidates were verified using the CDD (https://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi), the hidden Markov model of SMART (http://smart.embl-heidelberg.de/smart/set_mode.cgi?NORMAL=1)53,54 and InterProScan program (http://www.ebi.ac.uk/inter-pro/search/sequence-search) to confirm their completeness and the presence of bHLH domain. Details about the bHLH sequences, such as length of amino acid sequences, theoretical molecular weights (Mw) and isoelectric point (pI), were obtained from ExPASy Proteomics server (http://web.expasy.org/compute_pi/).

Copyright and License information: The Author(s) ©2018
Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

Do you have any questions about this protocol?

Post your question to gather feedback from the community. We will also invite the authors of this article to respond.

0/150

tip Tips for asking effective questions

+ Description

Write a detailed description. Include all information that will help others answer your question including experimental processes, conditions, and relevant images.

post Post a Question
0 Q&A