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1. Transcriptomic profiling of wheat near-isogenic lines reveals candidate genes on chromosome 3A for pre-harvest sprouting resistance

Author:
Xingyi Wang; Hui Liu; Kadambot H. M. Siddique; Guijun Yan
Source:
BMC plant biology 2021 v.21 no.1 pp. 53
ISSN:
1471-2229
Subject:
isogenic lines,   etc   ; RNA; chromosomes; gene expression; gene expression regulation; gene ontology; genes; genomics; grain yield; marker-assisted selection; phenotype; pollination; quantitative trait loci; quantitative traits; transcriptomics; wheat;     Show all 16 Subjects
Abstract:
... BACKGROUND: Pre-harvest sprouting (PHS) in wheat can cause severe damage to both grain yield and quality. Resistance to PHS is a quantitative trait controlled by many genes located across all 21 wheat chromosomes. The study targeted a large-effect quantitative trait locus (QTL) QPhs.ccsu-3A.1 for PHS resistance using several sets previously developed near-isogenic lines (NILs). Two pairs of NILs ...
DOI:
10.1186/s12870-021-02824-x

2. Near-isogenic lines of soybean confirm a QTL for seed waterlogging tolerance at different temperatures

Author:
Van Loc Nguyen; Thi Thu Hien Dang; Ha Duc Chu; Tetsuhiro Nakamura; Tomomi Abiko; Toshihiro Mochizuki
Source:
Euphytica 2021 v.217 no.1 pp. 16
ISSN:
0014-2336
Subject:
chromosomes; climate change; germination; hypoxia; probability; quantitative traits; rain; seedlings; soil; soybeans; temperature
Abstract:
... . Interestingly, through the analyses of recombinant inbred lines (RILs) developed from a cross between Tachinagaha and Iyodaizu, quantitative trait loci (QTLs) for root development under hypoxia at the seedling stage of soybean were detected on chromosome 12 (Chr.12).We investigated whether the candidate QTL region for root development is involved in seed waterlogging tolerance by using a near-isogenic line ...
DOI:
10.1007/s10681-020-02736-1

3. Photosynthetic and physiological responses to acetochlor in paired near-isogenic lines of waxy maize (Zea mays L.)

Author:
Ying Feng; Xuemei Zhong; Yuhan Yao; Zhensheng Shi; Fenghai Li; Hongwei Wang; Xiangling Lv; Wanli Du; Min Zhu; Hu Yang; Dexuan Meng
Source:
Environmental science and pollution research 2021 v.28 no.15 pp. 19298-19309
ISSN:
0944-1344
Subject:
Zea mays; acetochlor; antioxidant enzymes; carbon dioxide; chlorophyll; chloroplasts; electron transfer; exposure duration; lipid peroxidation; malondialdehyde; oxidative stress; photochemistry; photosystem II; pollution; research; stomatal conductance; water treatment; waxy corn
Abstract:
... Acetochlor is always used in maize (Zea mays L.) fields as a common pre-emergence herbicide. In this field study, we investigated the effects of acetochlor on the photosynthetic characteristics, chlorophyll fluorescence parameters, and antioxidant enzyme activities in acetochlor-resistant (BWC95) and acetochlor-sensitive (BWC12) near-isogenic lines. We sprayed acetochlor after sowing, using water ...
DOI:
10.1007/s11356-020-12043-w

4. Genetic characterization and association mapping in near-isogenic lines of waxy maize using seed characteristics and SSR markers

Author:
Hae Ri Kim; Kyu Jin Sa; Min Nam-Gung; Ki Jin Park; Si-Hwan Ryu; Chang Yeun Mo; Ju Kyong Lee
Source:
Genes & genomics 2021 v.43 no.1 pp. 79-90
ISSN:
1976-9571
Subject:
cluster analysis; crops; gene frequency; genetic variation; genomics; phenotype; population structure; waxy corn
Abstract:
... to investigate the genetic diversity and relationships of the basic molecular markers of near-isogenic lines (NILs) of waxy maize, but it is also to identify molecular markers related to interesting seed characteristics including 4 seed quantity traits and 4 seed phenotypic traits using association analysis with population structure. METHODS: We performed association mapping of 200 SSR markers and 8 seed ...
DOI:
10.1007/s13258-020-01030-7

5. Aggressiveness of Diverse French Aphanomyces euteiches Isolates on Pea Near Isogenic Lines Differing in Resistance Quantitative Trait Loci

Author:
Anne Quillévéré-Hamard; Gwenola Le Roy; Angélique Lesné; Christophe Le May; Marie-Laure Pilet-Nayel
Source:
Phytopathology 2021 v.111 no.4 pp. 695-702
ISSN:
0031-949X
Subject:
Aphanomyces euteiches; alleles; backcrossing; peas; plant pathology; provenance; quantitative traits; risk; root rot
Abstract:
... Aphanomyces root rot is a major disease in many pea growing regions worldwide. Development of resistant varieties is necessary to manage the disease. Near isogenic lines (NILs) carrying resistance alleles at main quantitative trait loci (QTLs) were developed by marker-assisted backcrossing. This study aimed to evaluate the aggressiveness of diverse French isolates of Aphanomyces euteiches on NILs ...
DOI:
10.1094/PHYTO-04-20-0147-R

6. High-generation near-isogenic lines combined with multi-omics to study the mechanism of polima cytoplasmic male sterility

Author:
Benqi Wang; Zunaira Farooq; Lei Chu; Jie Liu; Huadong Wang; Jian Guo; Jinxing Tu; Chaozhi Ma; Cheng Dai; Jin Wen; Jinxiong Shen; Tingdong Fu; Bin Yi
Source:
BMC plant biology 2021 v.21 no.1 pp. 130
ISSN:
1471-2229
Subject:
Brassica napus; cytoplasmic male sterility; energy; fecundity; growth and development; mitochondria; mitochondrial genome; multiomics; oxidative phosphorylation; plant growth; two hybrid system techniques
Abstract:
... BACKGROUND: Cytoplasmic male sterility (CMS), which naturally exists in higher plants, is a useful mechanism for analyzing nuclear and mitochondrial genome functions and identifying the role of mitochondrial genes in the plant growth and development. Polima (pol) CMS is the most universally valued male sterility type in oil-seed rape. Previous studies have described the pol CMS restorer gene Rfp a ...
DOI:
10.1186/s12870-021-02852-7

7. Characterization of near-isogenic lines confirmed QTL and revealed candidate genes for plant height and yield-related traits in common wheat

Author:
Yunxiao Zhang; Hui Liu; Guijun Yan
Source:
Molecular breeding 2021 v.41 no.1 pp. 4
ISSN:
1380-3743
Subject:
agronomic traits; assays; biomass; breeding programs; carbohydrates; chromosomes; correlation; genes; genomics; genotyping; information; marker-assisted selection; pH; plant height; proteins; seeds; synthesis; weight; wheat
Abstract:
... Plant height (PH) is closely associated with yield-related traits and environmental adaptation. Seven pairs of near-isogenic lines (NILs) targeting four QTL on 3AL, 4BL, 4AS, and 7AL wheat chromosome arms were assessed for PH and four yield-related traits including yield per plant (Y/P), grain number per spike (G/S), thousand kernel weight (TKW), and biomass per plant (B/P). Significant ...
DOI:
10.1007/s11032-020-01196-8

8. Multidisciplinary indicators for confirming the existence and ecological effects of a Taylor column in the Tropical Western Pacific Ocean

Author:
Jun Ma; Jinming Song; Xuegang Li; Qidong Wang; Guorong Zhong
Source:
Ecological indicators 2021 v.127 pp. 107777
ISSN:
1470-160X
Subject:
isogenic lines,   etc   ; acoustics; biodiversity; biomass; chlorophyll; hydrology; seamounts; Pacific Ocean;     Show all 8 Subjects
Abstract:
... The Taylor column, a typical hydrological structure around a seamount, can help to explain the high biomass and biodiversity around the seamount. However, it is difficult to observe a Taylor column in the field because it is easy to be destroyed by the change of ocean environment. Fortunately, a Taylor column around the C4 seamount in the Tropical Western Pacific Ocean was identified during our cr ...
DOI:
10.1016/j.ecolind.2021.107777

9. Drought Tolerant near Isogenic Lines (NILs) of Pusa 44 Developed through Marker Assisted Introgression of qDTY2.1 and qDTY3.1 Enhances Yield under Reproductive Stage Drought Stress

Author:
Priyanka Dwivedi; Naleeni Ramawat; Gaurav Dhawan; Subbaiyan Gopala Krishnan; Kunnummal Kurungara Vinod; Madan Pal Singh; Mariappan Nagarajan; Prolay Kumar Bhowmick; Nimai Prasad Mandal; Puvvada Perraju; Haritha Bollinedi; Ranjith Kumar Ellur; Ashok Kumar Singh
Source:
Agriculture (Basel) 2021 v.11 no.1 pp. -
ISSN:
2077-0472
Subject:
agriculture; backcrossing; cultivars; drought tolerance; genome; grain quality; introgression; irrigation; phenotypic selection; quantitative traits; rice; water stress; India
Abstract:
... of 98.6% to 99.4% among 31 near isogenic lines (NILs). Fourteen NILs were found to be significantly superior in yield and grain quality under RSDS with higher drought tolerance efficiency (DTE) than Pusa 44. Among these, the evaluation of two promising NILs in the multilocational trial during Kharif 2019 showed that they were significantly superior to Pusa 44 under reproductive stage drought stress ...
DOI:
10.3390/agriculture11010064

10. Yield and Quality in Purple-Grained Wheat Isogenic Lines

Author:
Alexey Morgounov; Yaşar Karaduman; Beyhan Akin; Sinan Aydogan; Peter Stephen Baenziger; Madhav Bhatta; Vladimir Chudinov; Susanne Dreisigacker; Velu Govindan; Safure Güler; Carlos Guzman; Ajit Nehe; Rachana Poudel; Devin Rose; Elena Gordeeva; Vladimir Shamanin; Kemal Subasi; Yuriy Zelenskiy; Elena Khlestkina
Source:
Agronomy 2020 v.10 no.1 pp. -
ISSN:
2073-4395
Subject:
isogenic lines,   etc   ; anthocyanins; antioxidant activity; breadmaking quality; breads; breeding programs; color; genes; genotype; genotype-environment interaction; pericarp; spring wheat; whole wheat flour; Kazakhstan; Russia; Turkey (country);     Show all 16 Subjects
Abstract:
... Breeding programs for purple wheat are underway in many countries but there is a lack of information on the effects of Pp (purple pericarp) genes on agronomic and quality traits in variable environments and along the product chain (grain-flour-bread). This study was based on unique material: two pairs of isogenic lines in a spring wheat cv. Saratovskaya-29 (S29) background differing only in Pp ...
DOI:
10.3390/agronomy10010086

11. Detection of a major QTL conditioning trichome length and density on chromosome arm 4BL and development of near isogenic lines targeting this locus in bread wheat

Author:
Zhitong Chen; Zhi Zheng; Wei Luo; Hong Zhou; Zhaoyang Ying; Chunji Liu
Source:
Molecular breeding 2021 v.41 no.2 pp. 10
ISSN:
1380-3743
Subject:
alleles; flowering; heterozygosity; loci; trichomes; wheat
Abstract:
... population. Three pairs of near isogenic lines targeting this locus were obtained from these heterozygous plants. Difference in trichome length between the two lines with opposite alleles for each of these NIL pairs were similar to that between the two parental genotypes for the mapping populations, confirming that this single locus is mainly responsible for the trichome characteristics measured ...
DOI:
10.1007/s11032-021-01201-8

12. Strong photoperiod sensitivity is controlled by cooperation and competition among Hd1, Ghd7 and DTH8 in rice heading

Author:
Wubei Zong; Ding Ren; Minghui Huang; Kangli Sun; Jinglei Feng; Jing Zhao; Dongdong Xiao; Wenhao Xie; Shiqi Liu; Han Zhang; Rong Qiu; Wenjing Tang; Ruqi Yang; Hongyi Chen; Xianrong Xie; Letian Chen; Yao‐Guang Liu; Jingxin Guo
Source:
new phytologist 2021 v.229 no.3 pp. 1635-1649
ISSN:
0028-646X
Subject:
isogenic lines,   etc   ; Oryza sativa; allelic variation; evolution; genes; genetic relationships; heading; mutagenesis; photoperiod; population; rice;     Show all 11 Subjects
Abstract:
... Rice (Oryza sativa) is a short‐day (SD) plant originally having strong photoperiod sensitivity (PS), with SDs promoting and long days (LDs) suppressing flowering. Although the evolution of PS in rice has been extensively studied, there are few studies that combine the genetic effects and underlying mechanism of different PS gene combinations with variations in PS. We created a set of isogenic ...
DOI:
10.1111/nph.16946

13. The local-scale expansion of Dermacentor reticulatus ticks in Lower Silesia, SW Poland

Author:
Dorota Kiewra; Mariusz Szymanowski; Aleksandra Czułowska; Aleksandra Kolanek
Source:
Ticks and tick-borne diseases 2021 v.12 no.1 pp. 101599
ISSN:
1877-959X
Subject:
isogenic lines,   etc   ; Dermacentor reticulatus; land use; models; probability; tick-borne diseases; ticks; Poland;     Show all 8 Subjects
Abstract:
... The range of D. reticulatus is discontinuous in Europe, with a gap between the Western and Eastern European populations. Recent studies have shown, however, a decrease in the gap as a consequence of D. reticulatus spreading to new areas. This study aims to analyze the dynamic of local-scale changes in the D. reticulatus range in Lower Silesia, SW Poland. All sites of D. reticulatus presence recogn ...
DOI:
10.1016/j.ttbdis.2020.101599

14. Characterizing introgression-by-environment interactions using maize near isogenic lines

Author:
Zhi Li; Sara B. Tirado; Dnyaneshwar C. Kadam; Lisa Coffey; Nathan D. Miller; Edgar P. Spalding; Aaron J. Lorenz; Natalia de Leon; Shawn M. Kaeppler; Patrick S. Schnable; Nathan M. Springer; Candice N. Hirsch
Source:
Theoretical and applied genetics 2020 v.133 no.10 pp. 2761-2773
ISSN:
0040-5752
Subject:
corn; genetic background; genomics; genotype-environment interaction; introgression; phenotype; phenotypic plasticity; quantitative traits; transgenes
Abstract:
... substantially in different environments due to introgression-by-environment interactions. To study potential patterns of introgression-by-environment interactions, fifteen near-isogenic lines (NILs) with > 90% B73 genetic background and multiple Mo17 introgressions were grown in 16 different environments. These environments included five geographical locations with multiple planting dates and multiple ...
DOI:
10.1007/s00122-020-03630-z

15. Identification of loci and candidate genes controlling kernel weight in barley based on a population for which whole genome assemblies are available for both parents

Author:
Hong Zhou; Wei Luo; Shang Gao; Jian Ma; Meixue Zhou; Yuming Wei; Youliang Zheng; Yaxi Liu; Chunji Liu
Source:
crop journal 2021 v.9 no.4 pp. 854-861
ISSN:
2214-5141
Subject:
isogenic lines,   etc   ; area; barley; chromosome mapping; genes; genome assembly; grain crops; greenhouses; inbred lines; length; loci; parents; population; seeds; weight;     Show all 15 Subjects
Abstract:
... (located on 2HL, 6HL, and 7HL, respectively) identified from the BA population were also detected in the MA population under different environments. The locus on 6HL was detected in each of the experiments conducted for both populations thus was selected for developing near isogenic lines (NILs). Apart from KW, the two isolines for each pair of the putative NILs obtained showed no significant difference ...
DOI:
10.1016/j.cj.2020.07.010

16. Identification of lncRNAs involved in wheat tillering development in two pairs of near-isogenic lines

Author:
Wanlin Zhou; Haoran Shi; Zhiqiang Wang; Yueting Zhao; Xiangjian Gou; Caixia Li; Guangdeng Chen; Shihang Liu; Mei Deng; Jian Ma; Youliang Zheng; Yuming Wei; Yaxi Liu
Source:
Functional & integrative genomics 2020 v.20 no.5 pp. 669-679
ISSN:
1438-793X
Subject:
isogenic lines,   etc   ; Triticum aestivum; biosynthesis; brassinosteroids; carotenoids; crop yield; gene expression regulation; genes; secondary metabolites; sequence analysis; tillering; wheat; zeatin;     Show all 13 Subjects
Abstract:
... Emerging evidence demonstrates that lncRNAs participate in various developmental processes in plants via post-transcription regulation. However, few lncRNAs have been identified as regulators of tiller development in wheat (Triticum aestivum L.). In this study, high-throughput ribosomal depleted RNA sequencing was performed on the tillering nodes of two pairs of near-isogenic lines that differed ...
DOI:
10.1007/s10142-020-00742-z

17. Identification through fine mapping and verification using CRISPR/Cas9-targeted mutagenesis for a minor QTL controlling grain weight in rice

Author:
Aye Nyein Chan; Lin-Lin Wang; Yu-Jun Zhu; Ye-Yang Fan; Jie-Yun Zhuang; Zhen-Hua Zhang
Source:
Theoretical and applied genetics 2021 v.134 no.1 pp. 327-337
ISSN:
0040-5752
Subject:
isogenic lines,   etc   ; CRISPR-Cas systems; alleles; exhibitions; gene editing; genetically modified organisms; homozygosity; mutagenesis; phenotypic variation; population; quantitative trait loci; rice; weight;     Show all 13 Subjects
Abstract:
... of validated genes underlying quantitative trait loci having small effects. In this study, a minor QTL for grain weight, qTGW1.2b, was fine-mapped into a 44.0 kb region using seven sets of near isogenic lines (NILs) developed from the indica rice cross (Zhenshan 97)³/Milyang 46, followed by validation of the causal gene using CRISPR/Cas9-targeted mutagenesis. In the NIL populations, 1000-grain weight ...
DOI:
10.1007/s00122-020-03699-6

18. Genotypic and phenotypic characterization of a large, diverse population of maize near‐isogenic lines

Author:
Laura Morales; A. C. Repka; Kelly L. Swarts; William C. Stafstrom; Yijian He; Shannon M. Sermons; Qin Yang; Luis O. Lopez‐Zuniga; Elizabeth Rucker; Wade E. Thomason; Rebecca J. Nelson; Peter J. Balint‐Kurti
Source:
plant journal 2020 v.103 no.3 pp. 1246-1255
ISSN:
0960-7412
Subject:
alleles; allelic variation; corn; disease resistance; genotyping by sequencing; heritability; introgression; phenotype; quantitative traits
Abstract:
... Genome‐wide association (GWA) studies can identify quantitative trait loci (QTL) putatively underlying traits of interest, and nested association mapping (NAM) can further assess allelic series. Near‐isogenic lines (NILs) can be used to characterize, dissect and validate QTL, but the development of NILs is costly. Previous studies have utilized limited numbers of NILs and introgression donors. We ...
DOI:
10.1111/tpj.14787

19. Cold-water corals in the Subpolar North Atlantic Ocean exposed to aragonite undersaturation if the 2 °C global warming target is not met

Author:
Maribel I. García-Ibáñez; Nicholas R. Bates; Dorothee C.E. Bakker; Marcos Fontela; Antón Velo
Source:
Global and planetary change 2021 v.201 pp. 103480
ISSN:
0921-8181
Subject:
isogenic lines,   etc   ; alkalinity; aragonite; biodiversity; calcification; calcium carbonate; carbon dioxide; climate models; geographical distribution; ocean acidification; pH; salinity; seawater; Atlantic Ocean; Iceland;     Show all 15 Subjects
Abstract:
... The net uptake of carbon dioxide (CO₂) from the atmosphere is changing the ocean's chemical state. Such changes, commonly known as ocean acidification, include a reduction in pH and the carbonate ion concentration ([CO₃²⁻]), which in turn lowers oceanic saturation states (Ω) for calcium carbonate (CaCO₃) minerals. The Ω values for aragonite (Ωₐᵣₐgₒₙᵢₜₑ; one of the main CaCO₃ minerals formed by mar ...
DOI:
10.1016/j.gloplacha.2021.103480

20. The auxin response factor gene family in wheat (Triticum aestivum L.): Genome-wide identification, characterization and expression analyses in response to leaf rust

Author:
Anupama Gidhi; Manish Kumar; Kunal Mukhopadhyay
Source:
South African journal of botany 2021 v.140 pp. 312-325
ISSN:
0254-6299
Subject:
isogenic lines,   etc   ; DNA; Triticum aestivum; auxins; chromosomes; growth and development; infection; introns; leaf rust; microRNA; phylogeny; response elements; signal transduction; transcription factors; wheat;     Show all 15 Subjects
Abstract:
... Auxin response factors (ARFs) are plant-specific transcription factors that bind explicitly to Auxin Response Elements and mediate downstream expression of auxin responsive genes involved at various stages of plant growth and development. This study identified 52 ARF genes located within the wheat genome. Based on phylogenetic analysis, the identified ARF proteins of wheat were classified into fou ...
DOI:
10.1016/j.sajb.2020.06.017