Identification and evolutionary characterization of ARGONAUTE-binding platforms

Joshua T. Trujillo, Rebecca Ann Mosher Harris

Research output: Chapter in Book/Report/Conference proceedingChapter

1 Citation (Scopus)

Abstract

ARGONAUTE (AGO) proteins are eukaryotic RNA silencing effectors that interact with their binding partners via short peptide motifs known as AGO hooks. AGO hooks tend to cluster in one region of the protein to create an AGO-binding platform. In addition to the presence of AGO hooks, AGO-binding platforms are intrinsically disordered, contain tandem repeat arrays, and have weak sequence conservation even between close relatives. These characteristics make it difficult to identify and perform evolutionary analysis of these regions. Because of their weak sequence conservation, only a few AGO-binding platforms are characterized, and the evolution of these regions is only poorly understood. In this chapter we describe modules developed for computational identification and evolutionary analysis of AGO-binding platforms, with particular emphasis on understanding evolution of the tandem repeat arrays.

Original languageEnglish (US)
Title of host publicationMethods in Molecular Biology
PublisherHumana Press Inc.
Pages257-266
Number of pages10
Volume1640
DOIs
StatePublished - 2017

Publication series

NameMethods in Molecular Biology
Volume1640
ISSN (Print)1064-3745

Fingerprint

Tandem Repeat Sequences
RNA Interference
Proteins
Peptides

Keywords

  • AGO hook
  • ARGONAUTE
  • Tandem repeat

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

Cite this

Trujillo, J. T., & Harris, R. A. M. (2017). Identification and evolutionary characterization of ARGONAUTE-binding platforms. In Methods in Molecular Biology (Vol. 1640, pp. 257-266). (Methods in Molecular Biology; Vol. 1640). Humana Press Inc.. https://doi.org/10.1007/978-1-4939-7165-7_19

Identification and evolutionary characterization of ARGONAUTE-binding platforms. / Trujillo, Joshua T.; Harris, Rebecca Ann Mosher.

Methods in Molecular Biology. Vol. 1640 Humana Press Inc., 2017. p. 257-266 (Methods in Molecular Biology; Vol. 1640).

Research output: Chapter in Book/Report/Conference proceedingChapter

Trujillo, JT & Harris, RAM 2017, Identification and evolutionary characterization of ARGONAUTE-binding platforms. in Methods in Molecular Biology. vol. 1640, Methods in Molecular Biology, vol. 1640, Humana Press Inc., pp. 257-266. https://doi.org/10.1007/978-1-4939-7165-7_19
Trujillo JT, Harris RAM. Identification and evolutionary characterization of ARGONAUTE-binding platforms. In Methods in Molecular Biology. Vol. 1640. Humana Press Inc. 2017. p. 257-266. (Methods in Molecular Biology). https://doi.org/10.1007/978-1-4939-7165-7_19
Trujillo, Joshua T. ; Harris, Rebecca Ann Mosher. / Identification and evolutionary characterization of ARGONAUTE-binding platforms. Methods in Molecular Biology. Vol. 1640 Humana Press Inc., 2017. pp. 257-266 (Methods in Molecular Biology).
@inbook{85f3d278b5f046ef91950c199573dcd3,
title = "Identification and evolutionary characterization of ARGONAUTE-binding platforms",
abstract = "ARGONAUTE (AGO) proteins are eukaryotic RNA silencing effectors that interact with their binding partners via short peptide motifs known as AGO hooks. AGO hooks tend to cluster in one region of the protein to create an AGO-binding platform. In addition to the presence of AGO hooks, AGO-binding platforms are intrinsically disordered, contain tandem repeat arrays, and have weak sequence conservation even between close relatives. These characteristics make it difficult to identify and perform evolutionary analysis of these regions. Because of their weak sequence conservation, only a few AGO-binding platforms are characterized, and the evolution of these regions is only poorly understood. In this chapter we describe modules developed for computational identification and evolutionary analysis of AGO-binding platforms, with particular emphasis on understanding evolution of the tandem repeat arrays.",
keywords = "AGO hook, ARGONAUTE, Tandem repeat",
author = "Trujillo, {Joshua T.} and Harris, {Rebecca Ann Mosher}",
year = "2017",
doi = "10.1007/978-1-4939-7165-7_19",
language = "English (US)",
volume = "1640",
series = "Methods in Molecular Biology",
publisher = "Humana Press Inc.",
pages = "257--266",
booktitle = "Methods in Molecular Biology",

}

TY - CHAP

T1 - Identification and evolutionary characterization of ARGONAUTE-binding platforms

AU - Trujillo, Joshua T.

AU - Harris, Rebecca Ann Mosher

PY - 2017

Y1 - 2017

N2 - ARGONAUTE (AGO) proteins are eukaryotic RNA silencing effectors that interact with their binding partners via short peptide motifs known as AGO hooks. AGO hooks tend to cluster in one region of the protein to create an AGO-binding platform. In addition to the presence of AGO hooks, AGO-binding platforms are intrinsically disordered, contain tandem repeat arrays, and have weak sequence conservation even between close relatives. These characteristics make it difficult to identify and perform evolutionary analysis of these regions. Because of their weak sequence conservation, only a few AGO-binding platforms are characterized, and the evolution of these regions is only poorly understood. In this chapter we describe modules developed for computational identification and evolutionary analysis of AGO-binding platforms, with particular emphasis on understanding evolution of the tandem repeat arrays.

AB - ARGONAUTE (AGO) proteins are eukaryotic RNA silencing effectors that interact with their binding partners via short peptide motifs known as AGO hooks. AGO hooks tend to cluster in one region of the protein to create an AGO-binding platform. In addition to the presence of AGO hooks, AGO-binding platforms are intrinsically disordered, contain tandem repeat arrays, and have weak sequence conservation even between close relatives. These characteristics make it difficult to identify and perform evolutionary analysis of these regions. Because of their weak sequence conservation, only a few AGO-binding platforms are characterized, and the evolution of these regions is only poorly understood. In this chapter we describe modules developed for computational identification and evolutionary analysis of AGO-binding platforms, with particular emphasis on understanding evolution of the tandem repeat arrays.

KW - AGO hook

KW - ARGONAUTE

KW - Tandem repeat

UR - http://www.scopus.com/inward/record.url?scp=85020552282&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85020552282&partnerID=8YFLogxK

U2 - 10.1007/978-1-4939-7165-7_19

DO - 10.1007/978-1-4939-7165-7_19

M3 - Chapter

VL - 1640

T3 - Methods in Molecular Biology

SP - 257

EP - 266

BT - Methods in Molecular Biology

PB - Humana Press Inc.

ER -