Plant SNAREs SYP22 and SYP23 interact with Tobacco mosaic virus 126 kDa protein and SYP2s are required for normal local virus accumulation and spread

Ibrahim, Amr; Yang, Xiaohua; Liu, Chengke; Cooper, Kimberly D.; Bishop, Bethany A; Zhu, Min; Kwon, Soonil; Schoelz, James E.; Nelson, Richard S.

doi:10.1016/j.virol.2020.04.002

Cited by 14 publications

(10 citation statements)

References 74 publications

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“…For instance, Sobic.010G160500.4 encodes an RNA helicase with a DEAD-box domain, which is often coopted by viruses to promote viral translation or replication, thus playing important roles in regulating infection 110 – 112 . Similarly, soluble N-ethylmaleimide-sensitive-factor attachment protein receptor (SNARE) proteins such as Sobic.001G528000.1 are essential in the biogenesis and fusion of vesicles of several plant viruses 113 – 116 . We also found one gene encoding a myosin (Sobic.002G108000.1) and two genes related to kinesin (Sobic.001G346600.1 and Sobic.001G399200.2), all filament-associated motor proteins involved in the transport of organelles 117 .…”

Section: Discussionmentioning

confidence: 99%

Genome-wide approaches for the identification of markers and genes associated with sugarcane yellow leaf virus resistance

Pimenta

Aono

Burbano

et al. 2021

Sci Rep

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Sugarcane yellow leaf (SCYL), caused by the sugarcane yellow leaf virus (SCYLV) is a major disease affecting sugarcane, a leading sugar and energy crop. Despite damages caused by SCYLV, the genetic base of resistance to this virus remains largely unknown. Several methodologies have arisen to identify molecular markers associated with SCYLV resistance, which are crucial for marker-assisted selection and understanding response mechanisms to this virus. We investigated the genetic base of SCYLV resistance using dominant and codominant markers and genotypes of interest for sugarcane breeding. A sugarcane panel inoculated with SCYLV was analyzed for SCYL symptoms, and viral titer was estimated by RT-qPCR. This panel was genotyped with 662 dominant markers and 70,888 SNPs and indels with allele proportion information. We used polyploid-adapted genome-wide association analyses and machine-learning algorithms coupled with feature selection methods to establish marker-trait associations. While each approach identified unique marker sets associated with phenotypes, convergences were observed between them and demonstrated their complementarity. Lastly, we annotated these markers, identifying genes encoding emblematic participants in virus resistance mechanisms and previously unreported candidates involved in viral responses. Our approach could accelerate sugarcane breeding targeting SCYLV resistance and facilitate studies on biological processes leading to this trait.

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Section: Discussionmentioning

confidence: 99%

Genome-wide approaches for the identification of markers and genes associated with sugarcane yellow leaf virus resistance

Pimenta

Aono

Burbano

et al. 2021

Sci Rep

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“…For instance, Sobic.010G160500.4, associated with Q clustering, encodes an RNA helicase with a DEAD-box domain; these host proteins are often coopted by viruses to promote viral translation or replication, playing important roles in regulating infection (Huang et al, 2010; Kovalev et al, 2012; Li et al, 2016). Similarly, soluble N-ethylmaleimide-sensitive-factor attachment protein receptor (SNARE) proteins, characterized by the motif present in Q clustering-associated Sobic.001G528000.1, are essential in the biogenesis and fusion of vesicles involved in intercellular replication and movement of several plant viruses (Wei et al, 2013; Cabanillas et al, 2018; Sasvari et al, 2018; Ibrahim et al, 2020). We also found one gene encoding a myosin (Sobic.002G108000.1) associated with Q clustering and two genes related to kinesin (Sobic.001G346600.1 and Sobic.001G399200.2) associated with SQ clustering.…”

Section: Discussionmentioning

confidence: 99%

“…For instance, Sobic.010G160500.4 encodes an RNA helicase with a DEAD-box domain, which are often coopted by viruses to promote viral translation or replication, playing important roles in regulating infection [108][109][110] . Similarly, soluble N-ethylmaleimide-sensitive-factor attachment protein receptor (SNARE) proteins such as Sobic.001G528000.1 are essential in the biogenesis and fusion of vesicles of several plant viruses [111][112][113][114] . We also found one gene encoding a myosin (Sobic.002G108000.1) and two genes related to kinesin (Sobic.001G346600.1 and Sobic.001G399200.2), filament-associated motor proteins involved in the transport of organelles 115 .…”

Section: Discussionmentioning

confidence: 99%

Genome-wide approaches for the identification of markers and genes associated with sugarcane yellow leaf virus resistance

Pimenta

Aono

Villavicencio

et al. 2020

Preprint

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The breeding of sugarcane, a leading sugar and energy crop, is complicated by the extremely complex sugarcane genome, which burdens research in the area and delays the development of new cultivars. One of the main viral diseases that affect this crop is sugarcane yellow leaf (SCYL), which is caused by the sugarcane yellow leaf virus (SCYLV). The most common symptom of SCYL is the yellowing of leaf midribs and blades, but asymptomatic cases are frequent. Regardless of the manifestation of SCYL, infection by SCYLV can lead to substantial yield losses, making resistance to this virus highly relevant to sugarcane breeding. However, the genetic basis of this trait has not been widely explored or explained. In this context, genome-wide association studies (GWASs) have arisen as promising tools for the identification of molecular markers associated with SCYLV resistance that can be employed in marker-assisted selection. In the present work, we performed a GWAS on sugarcane using codominant markers and genotypes of interest for breeding. A panel of 97 sugarcane genotypes inoculated with SCYLV was analyzed for SCYL symptom severity, and viral titer was estimated by reverse transcription quantitative PCR (RT-qPCR). A genotyping-by-sequencing (GBS) library was constructed for 94 individuals of this population, enabling the identification of 38,710 SNPs and 32,178 indels with information on allele proportion (AP) and position on the Saccharum spontaneum genome. For association analyses, several combinations of population structure and kinship were tested to reduce model inflation, and diverse marker-trait association mixed models were employed. We identified 35 markers significantly associated with SCYL symptom severity and 22 markers strongly associated with SCYLV titer that can be applied in breeding programs upon validation. By aligning the sequences flanking these markers with their coding sequences in several plant species, we annotated the functions of 7 genes. The possible involvement of these candidates in the response to SCYLV infection is discussed.

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“…In infection by Cowpea mosaic virus (CPMV, Comovirus ), the SNARE-like ER protein Vap27-1 interacts with the CPMV 60K membrane protein and colocalizes with the 60K-induced membranous vesicles [ 114 ]. Recently, two SNARE SYP2 family proteins, SYP22 and SYP23, have been shown to interact with the TMV 126 kDa replication protein [ 115 ]. The TMV 126 kDa protein targets the ER and induces cytoplasmic bodies.…”

Section: Plant Viruses Remodel Endomembrane Structures For the Format...mentioning

confidence: 99%

“…The TMV 126 kDa protein targets the ER and induces cytoplasmic bodies. It is not surprising that these SYP2 family proteins are required for normal TMV accumulation and spread [ 115 ].…”

Section: Plant Viruses Remodel Endomembrane Structures For the Format...mentioning

confidence: 99%

Manipulation of the Cellular Membrane-Cytoskeleton Network for RNA Virus Replication and Movement in Plants

Bernards

et al. 2023

Viruses

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Viruses infect all cellular life forms and cause various diseases and significant economic losses worldwide. The majority of viruses are positive-sense RNA viruses. A common feature of infection by diverse RNA viruses is to induce the formation of altered membrane structures in infected host cells. Indeed, upon entry into host cells, plant-infecting RNA viruses target preferred organelles of the cellular endomembrane system and remodel organellar membranes to form organelle-like structures for virus genome replication, termed as the viral replication organelle (VRO) or the viral replication complex (VRC). Different viruses may recruit different host factors for membrane modifications. These membrane-enclosed virus-induced replication factories provide an optimum, protective microenvironment to concentrate viral and host components for robust viral replication. Although different viruses prefer specific organelles to build VROs, at least some of them have the ability to exploit alternative organellar membranes for replication. Besides being responsible for viral replication, VROs of some viruses can be mobile to reach plasmodesmata (PD) via the endomembrane system, as well as the cytoskeleton machinery. Viral movement protein (MP) and/or MP-associated viral movement complexes also exploit the endomembrane-cytoskeleton network for trafficking to PD where progeny viruses pass through the cell-wall barrier to enter neighboring cells.

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Plant SNAREs SYP22 and SYP23 interact with Tobacco mosaic virus 126 kDa protein and SYP2s are required for normal local virus accumulation and spread

Cited by 14 publications

References 74 publications

Genome-wide approaches for the identification of markers and genes associated with sugarcane yellow leaf virus resistance

Genome-wide approaches for the identification of markers and genes associated with sugarcane yellow leaf virus resistance

Genome-wide approaches for the identification of markers and genes associated with sugarcane yellow leaf virus resistance

Manipulation of the Cellular Membrane-Cytoskeleton Network for RNA Virus Replication and Movement in Plants

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