M. J. Axtell

Small RNA Analysis of Virus-virus Interaction between Two Orthotospoviruses

This study uses small RNA sequencing to investigate how INSV affects TSWV processing and plant responses during their antagonistic interaction.

Trans-species microRNA loci in the parasitic plant Cuscuta campestris have a U6-like snRNA promoter

The paper identifies a U6-like snRNA promoter in Cuscuta campestris microRNAs that are induced at the parasite-host interface and may enable trans-species activity.

Expression and processing of polycistronic artificial microRNAs and trans-acting siRNAs in Solanum lycopersicum and Nicotiana benthamiana

The paper evaluates methods for multiplexed gene silencing in plants using artificial microRNAs and tasiRNAs, finding poor processing efficiency and highlighting the need for small RNA sequencing.

Integrated annotations and analyses of small RNA-producing loci from 47 diverse plants

The paper annotates and analyzes sRNA-producing loci in 47 plants using sRNA-seq data, identifying over 2.7 million loci and characterizing their genomic distribution and conservation.

Compensatory sequence variation between trans-species small RNAs and their target sites

The parasitic plant Cuscuta produces a diverse set of sRNAs that compensate for sequence variation in mRNA targets in diverse hosts.

Several phased siRNA annotation methods can frequently misidentify 24 nucleotide siRNA-dominated PHAS loci

This study shows that existing PHAS-detecting algorithms frequently misidentify heterochromatic siRNAs as 24 nt-dominated PHAS loci in Arabidopsis thaliana.

Revisiting criteria for plant miRNA annotation in the era of big data

The paper updates miRNA annotation criteria for plants to address inaccuracies in large-scale sequencing data by emphasizing replication and minimizing false positives.