Mapping and validation of a major QTL for primary root length of soybean seedlings grown in hydroponic conditions

Abstract Background The root system provides nutrient absorption and is closely related to abiotic stress tolerance, but it is difficult to study the roots under field conditions. This study was conducted to identify quantitative trait loci (QTL) associated with primary root length (PRL) during soybean seedling growth in hydroponic conditions. A total of 103 F7 recombinant inbred lines (RILs) derived from a cross between K099 (short primary root) and Fendou 16 (long primary root) were used to identify QTL for PRL in soybean. The RIL population was genotyped with 223 simple sequence repeats markers covering 20 chromosomes. Phenotyping for primary root length was performed for 3-weeks plants grown in hydoponic conditions. The identified QTL was validated in near isogenic lines and in a separate RIL population. Results QTL analysis using inclusive composite interval mapping method identified a major QTL on Gm16 between SSR markers Sat_165 and Satt621, explaining 30.25 % of the total phenotypic variation. The identified QTL, qRL16.1, was further confirmed in a segregating population derived from a residual heterozygous line (RHLs-98). To validate qRL16.1 in a different genetic background, QTL analysis was performed in another F6 RIL population derived from a cross between Union (medium primary root) and Fendou 16, in which a major QTL was detected again in the same genomic region as qRL16.1, explaining 14 % of the total phenotypic variation for PRL. In addition, the effect of qRL16.1 was confirmed using two pair of near-isogenic lines (NILs). PRL was significantly higher in NILs possessing the qRL16.1 allele from Fendou 16 compared to allele from K099. Conclusions The qRL16.1 is a novel QTL for primary root length in soybean which provides important information on the genetic control of root development. Identification of this major QTL will facilitate positional cloning and DNA marker-assisted selection for root traits in soybean.

Download Full-text

Genetics of Root System Architecture Using Near-isogenic Lines of Melon

Journal of the American Society for Horticultural Science ◽

10.21273/jashs.133.3.448 ◽

2008 ◽

Vol 133 (3) ◽

pp. 448-458 ◽

Cited By ~ 17

Author(s):

Ana Fita ◽

Belén Picó ◽

Antonio J. Monforte ◽

Fernando Nuez

Keyword(s):

Root Length ◽

Average Length ◽

Primary Root ◽

Principal Component ◽

Root Traits ◽

Plant Size ◽

Root Density ◽

Near Isogenic Lines ◽

Isogenic Lines ◽

Secondary Roots

The study of the genetic control of natural variation in the root architecture of Cucumis melo L. is complex due to the difficulties of root phenotyping and to the quantitative nature of root traits and their plasticity. A library of near-isogenic lines (NILs), constructed by introgressing the genome of the exotic Korean accession Shongwan Charmi [SC (PI161375)] into the genetic background of the cultivar Piel de Sapo (PS) has recently become available. In this work, we used this population to identify quantitative trait loci (QTLs) controlling variation in root growth and architecture. We studied separately the primary root and the secondary and tertiary root systems during a 15-day period. Heritabilities for the root traits were moderate. Correlation and principal component analysis showed independence among traits measuring root length and root branching level, indicating the possibility of modifying both traits independently. PS and SC clearly differed in plant size. Significant allometric relationships between vine biomass and some root traits were identified. The use of NILs with similar plant size of PS allowed us to avoid the inaccuracies caused by size-dependent variation of root traits. A total of 17 QTLs for root traits in seven linkage groups were identified: three QTLs for primary root length, three QTLs for the diameter of the primary root, three QTLs for secondary root density, three QTLs for the average length of the secondary roots, three QTLs for the percentage of secondary roots bearing tertiary roots, and two QTLs for tertiary root density. In most of these traits, transgressive variation was observed.

Download Full-text

Non-TZF Protein AtC3H59/ZFWD3 Is Involved in Seed Germination, Seedling Development, and Seed Development, Interacting with PPPDE Family Protein Desi1 in Arabidopsis

International Journal of Molecular Sciences ◽

10.3390/ijms22094738 ◽

2021 ◽

Vol 22 (9) ◽

pp. 4738

Author(s):

Hye-Yeon Seok ◽

Hyungjoon Bae ◽

Taehyoung Kim ◽

Syed Muhammad Muntazir Mehdi ◽

Linh Vu Nguyen ◽

...

Keyword(s):

Seed Germination ◽

Seed Development ◽

Zinc Finger ◽

Root Length ◽

Primary Root ◽

Seedling Development ◽

Ccch Zinc Finger ◽

Family Protein ◽

Wd40 Domain ◽

Primary Root Length

Despite increasing reports on the function of CCCH zinc finger proteins in plant development and stress response, the functions and molecular aspects of many non-tandem CCCH zinc finger (non-TZF) proteins remain uncharacterized. AtC3H59/ZFWD3 is an Arabidopsis non-TZF protein and belongs to the ZFWD subfamily harboring a CCCH zinc finger motif and a WD40 domain. In this study, we characterized the biological and molecular functions of AtC3H59, which is subcellularly localized in the nucleus. The seeds of AtC3H59-overexpressing transgenic plants (OXs) germinated faster than those of wild type (WT), whereas atc3h59 mutant seeds germinated slower than WT seeds. AtC3H59 OX seedlings were larger and heavier than WT seedlings, whereas atc3h59 mutant seedlings were smaller and lighter than WT seedlings. Moreover, AtC3H59 OX seedlings had longer primary root length than WT seedlings, whereas atc3h59 mutant seedlings had shorter primary root length than WT seedlings, owing to altered cell division activity in the root meristem. During seed development, AtC3H59 OXs formed larger and heavier seeds than WT. Using yeast two-hybrid screening, we isolated Desi1, a PPPDE family protein, as an interacting partner of AtC3H59. AtC3H59 and Desi1 interacted via their WD40 domain and C-terminal region, respectively, in the nucleus. Taken together, our results indicate that AtC3H59 has pleiotropic effects on seed germination, seedling development, and seed development, and interacts with Desi1 in the nucleus via its entire WD40 domain. To our knowledge, this is the first report to describe the biological functions of the ZFWD protein and Desi1 in Arabidopsis.

Download Full-text

Method for Bioassaying Chlorsulfuron in Soil and Water

Weed Science ◽

10.1017/s0043174500082540 ◽

1985 ◽

Vol 33 (3) ◽

pp. 420-425 ◽

Cited By ~ 12

Author(s):

Don W. Morishita ◽

Donald C. Thill ◽

Duane G. Flom ◽

Tanaquil C. Campbell ◽

Gary A. Lee

Keyword(s):

Zea Mays ◽

Root Length ◽

Linear Response ◽

Primary Root ◽

Recovery Efficiency ◽

Soil Extraction ◽

Bioassay Technique ◽

Primary Root Length ◽

Soil And Water

Bioassay techniques were evaluated for the determination of chlorsulfuron {2-chloro-N-[[(4-methoxy-6-methyl-1,3,5-triazin-2-yl)amino] carbonyl] benzenesulfonamide} residues in soil and water. A linear response of corn (Zea maysL.) primary root length to chlorsulfuron concentrations (InX+1) of 0.0 to 16.0 μg/L was observed in the water bioassay. Several soil extraction bioassay methods were attempted and found to be highly variable. A Ca(OH)2soil extraction bioassay technique produced a linear response of primary corn root length to chlorsulfuron concentrations ranging from 0.0 to 64.0 μg/kg. The efficiency of the Ca(OH)2extraction bioassay was determined by the use of14C-chlorsulfuron. Recovery efficiency at 1.0 μg/kg was 74% and averaged 62% at all higher chlorsulfuron concentrations.

Download Full-text

Priming and drying on the physiological quality of eggplant seeds

Horticultura Brasileira ◽

10.1590/s0102-05362012000300021 ◽

2012 ◽

Vol 30 (3) ◽

pp. 484-488 ◽

Cited By ~ 3

Author(s):

Delineide P Gomes ◽

Alexandre F da Silva ◽

Denise Cunha FS Dias ◽

Eveline M Alvarenga ◽

Laércio J da Silva ◽

...

Keyword(s):

Root Length ◽

Primary Root ◽

Dry Weight ◽

Control Group ◽

Peg 6000 ◽

Physiological Quality ◽

Three Sheets ◽

Osmotic Potentials ◽

Primary Root Length

We evaluated the effect of the priming with polyethyleneglicol (PEG) 6000 followed or not of drying on two lots of eggplant seeds with medium and low vigor respectively. The seeds were submitted to the treatments of priming with PEG 6000 in the osmotic potentials of -0.6, -0.9 and -1.2 MPa during 48 or 96 hours of priming with and without subsequent drying. For the soaking of seeds in osmotic solutions, these were placed over three sheets of paper boxes such germitest gerbox conditioning moistened with each solution in a 3:1 ratio. The control group was represented by unprimed seeds. The priming for both lots provided higher values in relation to the vigor through the first counting of germination, seedlings and primary root length, germination and emergence rates, emergence and dry weight of seedlings when compared to the non-primed seeds. These results were not verified for germination; significant differences practically were not observed in relation to the controls. Improvements in relation to the vigour were not higher on lot 2 than those obtained on lot 1. The priming with PEG 6000 with subsequent drying increased the vigor of eggplant seeds of the cultivar Morro Grande in relation to those non-primed, however, without differences in the germination.

Download Full-text

Use of near-isogenic lines to precisely map and validate a major QTL for grain weight on chromosome 4AL in bread wheat (Triticum aestivum L.)

Theoretical and Applied Genetics ◽

10.1007/s00122-019-03359-4 ◽

2019 ◽

Vol 132 (8) ◽

pp. 2367-2379 ◽

Cited By ~ 8

Author(s):

Panfeng Guan ◽

Na Di ◽

Qing Mu ◽

Xueyi Shen ◽

Yongfa Wang ◽

...

Keyword(s):

Triticum Aestivum ◽

Bread Wheat ◽

Triticum Aestivum L ◽

Grain Weight ◽

Near Isogenic Lines ◽

Isogenic Lines ◽

Major Qtl

Download Full-text

Development of near-isogenic lines for a major QTL on 3BL conferring Fusarium crown rot resistance in hexaploid wheat

Euphytica ◽

10.1007/s10681-011-0414-1 ◽

2011 ◽

Vol 183 (2) ◽

pp. 147-152 ◽

Cited By ~ 37

Author(s):

J. Ma ◽

G. J. Yan ◽

C. J. Liu

Keyword(s):

Hexaploid Wheat ◽

Crown Rot ◽

Near Isogenic Lines ◽

Fusarium Crown Rot ◽

Isogenic Lines ◽

Major Qtl

Download Full-text

Fine-mapping of qRL6.1, a major QTL for root length of rice seedlings grown under a wide range of NH4 + concentrations in hydroponic conditions

Theoretical and Applied Genetics ◽

10.1007/s00122-010-1328-3 ◽

2010 ◽

Vol 121 (3) ◽

pp. 535-547 ◽

Cited By ~ 72

Author(s):

Mitsuhiro Obara ◽

Wataru Tamura ◽

Takeshi Ebitani ◽

Masahiro Yano ◽

Tadashi Sato ◽

...

Keyword(s):

Fine Mapping ◽

Root Length ◽

Rice Seedlings ◽

Wide Range ◽

Hydroponic Conditions ◽

Major Qtl

Download Full-text

Construction of a high density genetic map and QTL mapping of PEG-induced drought tolerance at the early seedling stage in sesame using whole genome re-sequencing

10.21203/rs.3.rs-50720/v2 ◽

2020 ◽

Author(s):

Junchao Liang ◽

Yanying Ye ◽

Xiaowen Yan ◽

Tingxian Yan ◽

Yueliang Rao ◽

...

Keyword(s):

Drought Tolerance ◽

Qtl Mapping ◽

Genetic Map ◽

Phenotypic Variation ◽

Root Length ◽

High Density ◽

Seedling Stage ◽

Whole Genome ◽

Major Qtls ◽

Ril Population

Abstract BackgroundImprovement in sesame (Sesamum indicum L.) drought tolerance at seedling stage is important for yield stability. Genetic approaches combing with conventional breeding is the most effective way to develop drought-tolerant cultivars. So far, only a few studies have been reported to reveal gene/ quantitative trait loci (QTL) controlling drought tolerance in sesame. To identify the genomic regions associated with drought tolerance, we constructed a high-density genetic map using a recombinant inbred line (RIL) population through whole genome re-sequencing (WGRS) technique. QTLs contributing to three seedling traits were identified under both non-stress and water stress conditions.ResultsThree drought tolerance related traits and their relative values (the ratio of value under stress to value under control condition), including seedling weight (SW), shoot length (SL) and root length (RL), were evaluated under control and PEG-induced osmotic conditions at seedling stage in a RIL population derived from cross of Zhushanbai (ZSB) and Jinhuangma (JHM). Significant variation and high broad sense heritability were observed for all traits except SW under stress condition in the population. With this population, a high-density linkage map with 1354 bin markers was constructed through WGRS strategy. Composite interval mapping analysis was performed for all the traits as well as their relative phenotypic data. A total of 34 QTLs were detected for these traits under both conditions and their relative values, and 13 stable QTLs associated with seven traits were revealed in two independent experiments, explaining on average, 4.95-16.26% of phenotypic variation for each QTL. Four of them contributed more than 10% of phenotypic variation. One region on chromosome 12 contained two major QTLs related to RL under osmotic condition and relative RL. Seven candidate genes underlying major QTLs for drought tolerance were identified according to gene descriptions and variations between parents.ConclusionThe current study reports the first QTL mapping of drought tolerance related traits through a RIL population and first QTL detection of root related trait (root length) in sesame. These findings will provide new genetic resources for molecular improvement of drought tolerance and candidate gene identification in sesame.

Download Full-text