scholarly journals Lotus japonicus, an autogamous, diploid legume species for classical and molecular genetics

1992 ◽  
Vol 2 (4) ◽  
pp. 487-496 ◽  
Author(s):  
Kurt Handberg ◽  
Jens Stougaard
Keyword(s):  
Molecular Genetics ◽  
Lotus Japonicus ◽  
Legume Species

Recent Advances in the Molecular Genetics of The Model Legume Lotus japonicus

1997 ◽  
pp. 255-258
Author(s):  
Leif Schauser ◽  
Leszek Boron ◽  
Eloisa Pajuelo ◽  
Thomas Thykjær ◽  
Dorthe Danielsen ◽  
...  
Keyword(s):  
Molecular Genetics ◽  
Lotus Japonicus ◽  
Model Legume ◽  
Recent Advances

scholarly journals Metal transporter encoding gene families in Fabaceae: III. The zinc-iron permease (ZIP) gene family

2020 ◽  
Vol 4 (1) ◽  
pp. First
Author(s):  
Cao Phi Bằng
Keyword(s):  
Plasma Membranes ◽  
Lotus Japonicus ◽  
Gene Families ◽  
Pigeon Pea ◽  
Gene Gain ◽  
Legume Species ◽  
Metal Transporter ◽  
Group I ◽  
Duplication Events ◽  
Zip Genes

In plants, Zinc and Iron are transported through the membrane by proteins belonging to Zinc-Iron permease (ZIP: ZRT/IRT-like Protein). In this work, the ZIP gene families were identified in the genome of five legume species. The results demonstrated that the ZIPs were belonged to a multigeneic family in each species including soybean (28 genes), Medicago truncalata (16 genes), chickpea (7 genes), pigeon pea (12 genes), and Lotus japonicus (15 genes). Each gene contained from one to twelve introns. ZIP proteins possessed a conserved histidine-rich motif. Most of these proteins contained eight putative transmembrane domains and were predicted to be localized in plasma membranes. The phylogeny analysis showed that the legume ZIPs were classified into four main groups, each of which includes many subgroups. The group I contained the ZIP members of five examined plants. Moreover, the phylogeny showed gene gain events (expansion) in group I and gene loss events in other groups. The gene expansion in group I is likely to have arisen mainly from recent duplication events of ZIP genes in the examined legume plants, after specialization. The expression analysis showed that all of ZIP genes were expressed in all of the examined tissues in L. japonicus. The expression level of ZIP members was not similar in different tissues of the plant. Some ZIP genes were predominantly expressed in certain tissues for most of the legume species investigated.

LegumeDB1 bioinformatics resource: comparative genomic analysis and novel cross-genera marker identification in lupin and pasture legume species

Genome ◽  
2006 ◽  
Vol 49 (6) ◽  
pp. 689-699 ◽  
Author(s):  
P Moolhuijzen ◽  
M Cakir ◽  
A Hunter ◽  
D Schibeci ◽  
A Macgregor ◽  
...  
Keyword(s):  
Medicago Truncatula ◽  
Expressed Sequence Tags ◽  
Lotus Japonicus ◽  
Comparative Genomic ◽  
Legume Species ◽  
Model Legume ◽  
Bioinformatics Resource ◽  
Expressed Sequence ◽  
Simple Sequence ◽  
Pasture Legume

The identification of markers in legume pasture crops, which can be associated with traits such as protein and lipid production, disease resistance, and reduced pod shattering, is generally accepted as an important strategy for improving the agronomic performance of these crops. It has been demonstrated that many quantitative trait loci (QTLs) identified in one species can be found in other plant species. Detailed legume comparative genomic analyses can characterize the genome organization between model legume species (e.g., Medicago truncatula, Lotus japonicus) and economically important crops such as soybean (Glycine max), pea (Pisum sativum), chickpea (Cicer arietinum), and lupin (Lupinus angustifolius), thereby identifying candidate gene markers that can be used to track QTLs in lupin and pasture legume breeding. LegumeDB is a Web-based bioinformatics resource for legume researchers. LegumeDB analysis of Medicago truncatula expressed sequence tags (ESTs) has identified novel simple sequence repeat (SSR) markers (16 tested), some of which have been putatively linked to symbiosome membrane proteins in root nodules and cell-wall proteins important in plant-pathogen defence mechanisms. These novel markers by preliminary PCR assays have been detected in Medicago truncatula and detected in at least one other legume species, Lotus japonicus, Glycine max, Cicer arietinum, and (or) Lupinus angustifolius (15/16 tested). Ongoing research has validated some of these markers to map them in a range of legume species that can then be used to compile composite genetic and physical maps. In this paper, we outline the features and capabilities of LegumeDB as an interactive application that provides legume genetic and physical comparative maps, and the efficient feature identification and annotation of the vast tracks of model legume sequences for convenient data integration and visualization. LegumeDB has been used to identify potential novel cross-genera polymorphic legume markers that map to agronomic traits, supporting the accelerated identification of molecular genetic factors underpinning important agronomic attributes in lupin.Key words: legumes, comparative genomics, bioinformatics, expressed sequence tags (ESTs), simple sequence repeats (SSRs).

Genetic and phenotypic variation in Lotus japonicus (Regel) K. Larsen, a model legume species

2013 ◽  
Vol 93 (3) ◽  
pp. 435-444 ◽  
Author(s):  
Makiko Mimura
Keyword(s):  
Phenotypic Variation ◽  
Lotus Japonicus ◽  
Mantel Test ◽  
Total Biomass ◽  
Clinal Variation ◽  
Legume Species ◽  
Partial Mantel Test ◽  
Model Legume ◽  
Japanese Archipelago ◽  
The Japanese Archipelago

Mimura, M. 2013. Genetic and phenotypic variation in Lotus japonicus (Regel) K. Larsen, a model legume species. Can. J. Plant Sci. 93: 435–444. Lotus japonicus is a model legume species with more than 90% of its gene space determined; however, its ecological and evolutionary background is little known. The genetic and phenotypic variation of this model species was investigated within the Japanese Archipelago, where it exists in various climates and has experienced repeated vegetative shifts in conjunction with historical climate changes, using nuclear microsatellite loci and common garden experiments. The partial Mantel test was performed to detect the influence of phylogeographic effects on phenotypic variation among accessions along environmental gradients. Western Japan showed more complex genetic population structures than northern Japan, which may reflect past population dynamics. The total biomass demonstrated clinal variation with a climatic variable (ClimatePC). The trend was significant in a partial Mantel test when controlling for genetic distance, which is independent of the environmental distance. This suggests adaptive divergence within the Japanese Archipelago. With highly accessible genome information, L. japonicus appears to be a promising species for future ecological and evolutionary studies.

Functional genomics of plant transporters in legume nodules

2006 ◽  
Vol 33 (8) ◽  
pp. 731 ◽  
Author(s):  
Vagner A. Benedito ◽  
Xinbin Dai ◽  
Ji He ◽  
Patrick X. Zhao ◽  
Michael K. Udvardi
Keyword(s):  
Functional Genomics ◽  
Cell Biology ◽  
Recent Progress ◽  
Infected Plant ◽  
Lotus Japonicus ◽  
Plant Cells ◽  
Transport Processes ◽  
Legume Species ◽  
The Past ◽  
Basic Understanding

Over the past few decades, a combination of physiology, biochemistry, molecular and cell biology, and genetics has given us a basic understanding of some of the key transport processes at work in nitrogen-fixing legume nodules, especially those involved in nutrient exchange between infected plant cells and their endosymbiotic rhizobia. However, our knowledge in this area remains patchy and dispersed over numerous legume species. Recent progress in the areas of genomics and functional genomics of the two model legumes, Medicago truncatula and Lotus japonicus is rapidly filling the gap in knowledge about which plant transporter genes are expressed constitutively in nodules and other organs, and which are induced or expressed specifically in nodules. The latter class in particular is the focus of current efforts to understand specialised, nodule-specific roles of transporters. This article briefly reviews past work on the biochemistry and molecular biology of plant transporters in nodules, before describing recent work in the areas of transcriptomics and bioinformatics. Finally, we consider where functional genomics together with more classical approaches are likely to lead us in this area of research in the future.

Introduction

1978 ◽  
Vol 36 (3) ◽  
pp. 543-544
Author(s):  
W. Bernard
Keyword(s):  
Molecular Weight ◽  
Electron Microscope ◽  
Nucleic Acid ◽  
Gene Mapping ◽  
Molecular Genetics ◽  
Cell Biology ◽  
Gene Activity ◽  
Close Connection ◽  
Basic Information ◽  
Simple Systems

In comparison to many other fields of ultrastructural research in Cell Biology, the successful exploration of genes and gene activity with the electron microscope in higher organisms is a late conquest. Nucleic acid molecules of Prokaryotes could be successfully visualized already since the early sixties, thanks to the Kleinschmidt spreading technique - and much basic information was obtained concerning the shape, length, molecular weight of viral, mitochondrial and chloroplast nucleic acid. Later, additonal methods revealed denaturation profiles, distinction between single and double strandedness and the use of heteroduplexes-led to gene mapping of relatively simple systems carried out in close connection with other methods of molecular genetics.

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