Soil microbiota manipulation and its role in suppressing soil-borne plant pathogens in organic farming systems under the light of microbiome-assisted strategies

U De Corato - Chemical and Biological Technologies in Agriculture, 2020 - Springer
Soil microbiota plays a key role in suppressing soil-borne plant pathogens improving the
natural soil suppressiveness. Microbiome disturbance triggers specific perturbation to …

A complete telomere-to-telomere assembly of the maize genome

J Chen, Z Wang, K Tan, W Huang, J Shi, T Li, J Hu… - Nature …, 2023 - nature.com
A complete telomere-to-telomere (T2T) finished genome has been the long pursuit of
genomic research. Through generating deep coverage ultralong Oxford Nanopore …

The genetic and epigenetic landscape of the Arabidopsis centromeres

M Naish, M Alonge, P Wlodzimierz, AJ Tock… - Science, 2021 - science.org
INTRODUCTION The centromeres of eukaryotic chromosomes assemble the multiprotein
kinetochore complex and thereby position attachment to the spindle microtubules, allowing …

MAFFT-DASH: integrated protein sequence and structural alignment

J Rozewicki, S Li, KM Amada, DM Standley… - Nucleic acids …, 2019 - academic.oup.com
Here, we describe a web server that integrates structural alignments with the MAFFT
multiple sequence alignment (MSA) tool. For this purpose, we have prepared a web-based …

GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics

M Zvyagin, A Brace, K Hippe, Y Deng… - … Journal of High …, 2023 - journals.sagepub.com
We seek to transform how new and emergent variants of pandemic-causing viruses,
specifically SARS-CoV-2, are identified and classified. By adapting large language models …

Human gut microbiota from autism spectrum disorder promote behavioral symptoms in mice

G Sharon, NJ Cruz, DW Kang, MJ Gandal, B Wang… - Cell, 2019 - cell.com
Autism spectrum disorder (ASD) manifests as alterations in complex human behaviors
including social communication and stereotypies. In addition to genetic risks, the gut …

MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization

K Katoh, J Rozewicki, KD Yamada - Briefings in bioinformatics, 2019 - academic.oup.com
This article describes several features in the MAFFT online service for multiple sequence
alignment (MSA). As a result of recent advances in sequencing technologies, huge numbers …

Parallelization of MAFFT for large-scale multiple sequence alignments

T Nakamura, KD Yamada, K Tomii, K Katoh - Bioinformatics, 2018 - academic.oup.com
We report an update for the MAFFT multiple sequence alignment program to enable parallel
calculation of large numbers of sequences. The G-INS-1 option of MAFFT was recently …

Nuclear matrix metalloproteinases: functions resemble the evolution from the intracellular to the extracellular compartment

Y **e, A Mustafa, A Yerzhan, D Merzhakupova… - Cell death …, 2017 - nature.com
Matrix metalloproteinase (MMP) is defined as an endopeptidase in the extracellular matrix
(ECM), which plays essential roles in physiological processes such as organogenesis …

Phylogenomics, diversification dynamics, and comparative transcriptomics across the spider tree of life

R Fernández, RJ Kallal, D Dimitrov, JA Ballesteros… - Current Biology, 2018 - cell.com
Dating back to almost 400 mya, spiders are among the most diverse terrestrial predators [1].
However, despite considerable effort [1–9], their phylogenetic relationships and …