Dataset Information

Weed presence altered biotic stress and light signaling in maize even when weeds were removed early in the critical weed-free period.

ABSTRACT: Weed presence early in the life cycle of maize (typically, from emergence through the 8 to 12 leaf growth stage) can reduce crop growth and yield and is known as the critical weed-free period (CWFP). Even if weeds are removed during or just after the CWFP, crop growth and yield often are not recoverable. We compared transcriptome responses of field-grown hybrid maize at V8 in two consecutive years among plants grown under weed-free and two weed-stressed conditions (weeds removed at V4 or present through V8) using RNAseq analysis techniques. Compared with weed-free plant responses, physiological differences at V8 were identified in all weed-stressed plants and were most often associated with altered photosynthetic processes, hormone signaling, nitrogen use and transport, and biotic stress responses. Even when weeds were removed at V4 and tissues sampled at V8, carbon: nitrogen supply imbalance, salicylic acid signals, and growth responses differed between the weed-stressed and weed-free plants. These underlying processes and a small number of developmentally important genes are potential targets for decreasing the maize response to weed pressure. Expression differences of several novel, long noncoding RNAs resulting from exposure of maize to weeds during the CWFP were also observed and could open new avenues for investigation into the function of these transcription units.

SUBMITTER: Horvath DP

PROVIDER: S-EPMC6508562 | biostudies-literature | 2018 Apr

REPOSITORIES: biostudies-literature

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Weed presence altered biotic stress and light signaling in maize even when weeds were removed early in the critical weed-free period.

Horvath David P DP Bruggeman Stephanie S Moriles-Miller Janet J Anderson James V JV Dogramaci Munevver M Scheffler Brian E BE Hernandez Alvaro G AG Foley Michael E ME Clay Sharon S

Plant direct 20180423 4

Weed presence early in the life cycle of maize (typically, from emergence through the 8 to 12 leaf growth stage) can reduce crop growth and yield and is known as the critical weed-free period (CWFP). Even if weeds are removed during or just after the CWFP, crop growth and yield often are not recoverable. We compared transcriptome responses of field-grown hybrid maize at V8 in two consecutive years among plants grown under weed-free and two weed-stressed conditions (weeds removed at V4 or present ...[more]

PMID: 31245722

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Project description:Purpose: This study is designed to identify genes and processes that are differentially regulated in corn when it is grown with or without weeds through the entire critical weed free period (to V8) or when weeds were removed early in the critical weed free period (at V4) and the plants were allowed to recover until V8. Methods: Corn was grown as described above in field plots near Brookings SD in 2007 and 2008 and RNA was extracted from the top-most leaf tips from four plants per treatment plot. Unidirectional cDNA illumina sequencing libraries were constructed for each sample (pooled leaf tips from the given plot), and were sequenced (some samples were paired end sequenced and some were single end sequenced - all 100 bases for PE and SE reads), quality trimmed, and analyzed using the Tuxedo suite of programs for SE reads of the forward read libraries for each sample. Results: We identified a small number of genes that were differentially expressed in both years. More importantly, gene set enrichment analysis of the data determined that weeds, when present through the critical weed free period impacted phytochrome signaling, defense responses, photosynthetic processes, oxidative stress responses, and various hormone signaling processes. When weeds were removed at V4 and the plants allowed to recover until V8, the weeds still imprinted impacts on phytochrome signaling, oxidative stress, and defense responses. Thus, it appears that weeds presence through the early portion of the critical weed free period, even after removal, induced processes that reduce corn growth and yield that lasted at least through V8. Conclusions: This study represents the first investigation of the impact of the lasting effects of weeds during the early critical weed free period on the transcriptome of corn, and provides additional data on the impact of weeds through the critical weed free period that augments and confirms much of what was observed in similar microarray studies.

Project description:Widespread weeds are a serious nuisance to farmers in any country whether they are growing agricultural or horticultural crops for the great damage they cause to the economy, human health and environment loss. Thus, it is important to measure their ecological importance, sociological characters, their contribution to the observed (dis)similarity between weed communities associated with agronomic and horticulture crops, as well as performing time series analysis and forecasting for their cumulative records. Hopefully with the aforementioned information available, it will be possible to determine the most detrimental which deserve resistance priority within a successful weed control plan, which is the aim of the current study. Depending on species records 2018-2020, fourteen weeds assigned widespread out of the 537-species recorded. Their values in the Importance Value Index (IVI) suggested that Sonchus oleraceus had the highest ecological importance among winter weeds (IVI = 50.5), whereas Bassia indica had the highest IVI among summer weeds (IVI = 42.7) and Cynodon dactylon showed the highest value in the observed competition throughout the year (IVI = 46.2). Analysis of Similarities (ANOSIM) indicates that the weed community structure is significantly affected by widespread weeds and the mean of ranked dissimilarities in floristic composition between groups (weed communities associated with crop categories) is greater than within groups. Similarity Percentage analysis (SIMPER) based on Bray-Curtis as a distance dissimilarity measure, revealed that Cyperus rotundus, Melilotus indicus and Beta vulgaris were the most discriminant species in creating the observed pattern of (dis)similarity between the weed community structure associated with agronomic and horticultural crops during the winter half of the year, while Aster squamatus and Echinochloa colona were the most discriminant during the summer half. It is prominent from the results of the current study and the implemented time-series analysis and forecasting that no-decline is expected in the cumulative records of the 14-widespread weeds when the same current weed management strategy is applied.

Dataset Information

Weed presence altered biotic stress and light signaling in maize even when weeds were removed early in the critical weed-free period.

Publications

Weed presence altered biotic stress and light signaling in maize even when weeds were removed early in the critical weed-free period.

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