Mining for genes encoding proteins associated with NopL of Sinorhizobium fredii HH103 using quantitative trait loci in soybean (Glycine max Merr.) recombinant inbred lines

YanJiao, Zhang; Liu, Xueying; Lin, Chen; Fu, Ying; Li, Changyu; Qi, Zhaoming; Zou, Jianan; Zhu, Rong; Li, Shuping; Wei, Wei; Wang, Jinhui; Chang, Huilin; Shi, Yan; Wang, Jieqi; Li, Qingying; Zhu, Junjie; Li, Jianyi; Jiang, Hongwei; Wu, Xiaoxia; Jia, Cunguang; Yin, Zhan; Hu, Zhenbang; Liu, Chunyan; Chen, Qingshan; Xin, Dawei

doi:10.1007/s11104-018-3745-z

Cited by 20 publications

(29 citation statements)

References 55 publications

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“…A previous study revealed that the correlation coefficients between BNF activity from acetylene reduction assays and NN and NDW were 0.44 and 0.70, respectively [ 49 ]. The locus on Gm03 detected in the current study overlaps a previously identified QTL related to NDW [ 61 ]. Additionally, a locus related to NN on Gm16 [ 61 ] overlaps a locus adjacent to a QTL we detected.…”

Section: Discussionsupporting

confidence: 69%

“…The locus on Gm03 detected in the current study overlaps a previously identified QTL related to NDW [ 61 ]. Additionally, a locus related to NN on Gm16 [ 61 ] overlaps a locus adjacent to a QTL we detected. The conditional QTLs associated with NopP may be useful for identifying genes encoding proteins that interact with NopP.…”

Section: Discussionsupporting

confidence: 69%

“…The soybean seeds were subjected to three major seed sterilization treatments, using chlorine gas, commercial Clorox bleach, containing 5.25% bleach, and 3% ( v / v ) hydrogen peroxide, and were then germinated on agar plates. Plants (one plant per jar) were inoculated with 109 bacteria (strain HH103 and mutant derivatives; see Table S2 ) at the Vc stage [ 61 ]. Plants were cultivated at 25 ± 2 °C in a temperature-controlled greenhouse with a 16-h photoperiod.…”

Section: Methodsmentioning

confidence: 99%

“…The experimental RIL population used in this study (‘Charleston’ × ‘Dongnong594′, n = 150) originated from two individual lines, Charleston and Dongnong594 [ 81 ]. To map QTLs controlling nodule-related traits in the RIL population of ‘Charleston’ × ‘Dongnong594′, we used the method of composite interval mapping [ 61 ], with WinQTL Cartographer [ 61 ]. The control marker number and window size were five and 10 cM, respectively.…”

Section: Methodsmentioning

confidence: 99%

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Identification of Soybean Genes Whose Expression is Affected by the Ensifer fredii HH103 Effector Protein NopP

Wang

Liu

et al. 2018

IJMS

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In some legume–rhizobium symbioses, host specificity is influenced by rhizobial nodulation outer proteins (Nops). However, the genes encoding host proteins that interact with Nops remain unknown. We generated an Ensifer fredii HH103 NopP mutant (HH103ΩNopP), and analyzed the nodule number (NN) and nodule dry weight (NDW) of 10 soybean germplasms inoculated with the wild-type E. fredii HH103 or the mutant strain. An analysis of recombinant inbred lines (RILs) revealed the quantitative trait loci (QTLs) associated with NopP interactions. A soybean genomic region containing two overlapping QTLs was analyzed in greater detail. A transcriptome analysis and qRT-PCR assay were used to identify candidate genes encoding proteins that interact with NopP. In some germplasms, NopP positively and negatively affected the NN and NDW, while NopP had different effects on NN and NDW in other germplasms. The QTL region in chromosome 12 was further analyzed. The expression patterns of candidate genes Glyma.12g031200 and Glyma.12g073000 were determined by qRT-PCR, and were confirmed to be influenced by NopP.

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Section: Discussionsupporting

confidence: 69%

Section: Discussionsupporting

confidence: 69%

Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

See 2 more Smart Citations

Identification of Soybean Genes Whose Expression is Affected by the Ensifer fredii HH103 Effector Protein NopP

Wang

Liu

et al. 2018

IJMS

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“…However, there are few reports on mining genes in QTLs associated with nodulation‐related traits in legumes, especially in soybean. Until now, the latest research for mining genes that interacted with NopL in S. fredii HH103 demonstrated candidate genes PP2C‐related protein and RPK probably interacted with NopL‐mediated plant defence suppression (Zhang et al., ).…”

Section: Discussionmentioning

confidence: 99%

Identification of a gene encoding a sugar transporter as a potential target of a novel LysR‐type transcriptional regulator rluD from rhizobium required for symbiotic nodulation in soybean (Glycine max Merr.)

Chang

Zhu

et al. 2019

Plant Breeding

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Rhizobia can fine‐tune activating key genes involved in background regulation network of nodulation in effective symbiosis processes. Detecting the mechanism of the soybean‐rhizobium interaction plays a pivotal role in aiding the agricultural environment. Here, we report that LysR family transcriptional factor rluD is a novel putative gene that supports symbiosis of broad host‐range strain Sinorhizobium fredii HH103 (S. fredii HH103) during soybean nodulation. The nodule numbers (NN) and nodule dry weight (NDW) of ‘Charleston’ and ‘Dongnong594’ (parents of recombinant inbred line [RIL] population) were reduced after inoculation with S. fredii HH103ΩrluD compared to HH103. To further elucidate the mechanism of rluD in the establishment of symbiosis, unconditional and conditional quantitative trait loci (QTLs) underlying NN and NDW were detected via a high‐generation RILs inoculated with HH103ΩrluD and wild‐type HH103. A major locus of the overlapping region between unconditional and conditional QTLs on Chromosome 6 was identified. The candidate gene Glyma.06g166800 encodes a novel sugar transporter, which might interact with rluD based on qRT‐PCR analysis. This result is valuable for elucidating the mechanism of symbiosis.

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GmTNRP1, associated with rhizobial type‐III effector NopT, regulates nitrogenase activity in the nodules of soybean (Glycine max)

Liu

et al. 2023

Food and Energy Security

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Soybean is a rich source of protein and oil for humans. It forms a symbiotic association with rhizobia to fix atmospheric nitrogen for its growth and development.Rhizobial type-III effectors act as important signaling molecules in symbiosis.However, they are poorly studied. In this study, mutation of TtsI in Sinorhizobium fredii HH103 reduced nodule numbers and dry weights in SN14 (cultivated soybean) and ZYD00006 (wild soybean). Moreover, it reduced nitrogenase activity in SN14 but not in ZYD00006. Based on the differences in nitrogenase activity between SN14 and ZYD00006 inoculated with HH103 and the TtsI mutant, two conditional quantitative trait loci associated with nitrogenase activity were identified in chromosome segment substitution lines derived from SN14 and ZYD00006.Using transcriptome analysis, single-nucleotide polymorphism (SNP) analysis, and qRT-PCR, Glyma.13G150000 (GmTNRP1) was identified as a candidate gene in soybean that was associated with nitrogenase activity, along with NopT (a type-III effector). In addition, GmTNRP1 (an LRR-RK family protein located on the cell membrane) was observed to be induced by NopT to negatively regulate nitrogenase activity. In transgenic hairy roots with GmTNRP1 silencing, no significant difference was observed in terms of nitrogenase activity between nodules inoculated with the NopT mutant and those inoculated with HH103 (wild type).However, the nitrogenase activity in the nodules decreased after overexpression of GmTNRP1. SNP located in the GmTNRP1 promoter affected its expression in response to NopT. Haplotype analysis revealed that SN14 belonged to Hap1 and ZYD00006 belonged to Hap2, which explained the different results in the two varieties. To the best of our knowledge, this is the first study to identify a soybean gene associated with a rhizobial type-III effector in the nodules. GmTNRP1 can negatively regulate nitrogenase activity in the nodules. This study enhanced the

show abstract

Mining for genes encoding proteins associated with NopL of Sinorhizobium fredii HH103 using quantitative trait loci in soybean (Glycine max Merr.) recombinant inbred lines

Cited by 20 publications

References 55 publications

Identification of Soybean Genes Whose Expression is Affected by the Ensifer fredii HH103 Effector Protein NopP

Identification of Soybean Genes Whose Expression is Affected by the Ensifer fredii HH103 Effector Protein NopP

Identification of a gene encoding a sugar transporter as a potential target of a novel LysR‐type transcriptional regulator rluD from rhizobium required for symbiotic nodulation in soybean (Glycine max Merr.)

GmTNRP1, associated with rhizobial type‐III effector NopT, regulates nitrogenase activity in the nodules of soybean (Glycine max)

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