GLORIA

GEOMAR Library Ocean Research Information Access

X

Your email was sent successfully. Check your inbox.

An error occurred while sending the email. Please try again.

Proceed reservation?

Export
  • 1
    Online Resource
    Online Resource
    Prediction accuracies for growth and wood attributes of interior spruce in space using genotyping-by-sequencing
    Springer Science and Business Media LLC ; 2015
    In:  BMC Genomics Vol. 16, No. 1 ( 2015-12)
    Details
    In: BMC Genomics, Springer Science and Business Media LLC, Vol. 16, No. 1 ( 2015-12)
    Type of Medium: Online Resource
    ISSN: 1471-2164
    URL: Article
    DOI: 10.1186/s12864-015-1597-y
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2015
    detail.hit.zdb_id: 2041499-7
    SSG: 12
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 2
    Online Resource
    Online Resource
    Implementation of the Realized Genomic Relationship Matrix to Open-Pollinated White Spruce Family Testing for Disentangling Additive from Nonadditive Genetic Effects
    Oxford University Press (OUP) ; 2016
    In:  G3 Genes|Genomes|Genetics Vol. 6, No. 3 ( 2016-03-01), p. 743-753
    Details
    In: G3 Genes|Genomes|Genetics, Oxford University Press (OUP), Vol. 6, No. 3 ( 2016-03-01), p. 743-753
    Abstract: The open-pollinated (OP) family testing combines the simplest known progeny evaluation and quantitative genetics analyses as candidates’ offspring are assumed to represent independent half-sib families. The accuracy of genetic parameter estimates is often questioned as the assumption of “half-sibling” in OP families may often be violated. We compared the pedigree- vs. marker-based genetic models by analysing 22-yr height and 30-yr wood density for 214 white spruce [Picea glauca (Moench) Voss] OP families represented by 1694 individuals growing on one site in Quebec, Canada. Assuming half-sibling, the pedigree-based model was limited to estimating the additive genetic variances which, in turn, were grossly overestimated as they were confounded by very minor dominance and major additive-by-additive epistatic genetic variances. In contrast, the implemented genomic pairwise realized relationship models allowed the disentanglement of additive from all nonadditive factors through genetic variance decomposition. The marker-based models produced more realistic narrow-sense heritability estimates and, for the first time, allowed estimating the dominance and epistatic genetic variances from OP testing. In addition, the genomic models showed better prediction accuracies compared to pedigree models and were able to predict individual breeding values for new individuals from untested families, which was not possible using the pedigree-based model. Clearly, the use of marker-based relationship approach is effective in estimating the quantitative genetic parameters of complex traits even under simple and shallow pedigree structure.
    Type of Medium: Online Resource
    ISSN: 2160-1836
    URL: Article
    DOI: 10.1534/g3.115.025957
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2016
    detail.hit.zdb_id: 2629978-1
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 3
    Online Resource
    Online Resource
    Single-Step BLUP with Varying Genotyping Effort in Open-Pollinated Picea glauca
    Oxford University Press (OUP) ; 2017
    In:  G3 Genes|Genomes|Genetics Vol. 7, No. 3 ( 2017-03-01), p. 935-942
    Details
    In: G3 Genes|Genomes|Genetics, Oxford University Press (OUP), Vol. 7, No. 3 ( 2017-03-01), p. 935-942
    Abstract: Maximization of genetic gain in forest tree breeding programs is contingent on the accuracy of the predicted breeding values and precision of the estimated genetic parameters. We investigated the effect of the combined use of contemporary pedigree information and genomic relatedness estimates on the accuracy of predicted breeding values and precision of estimated genetic parameters, as well as rankings of selection candidates, using single-step genomic evaluation (HBLUP). In this study, two traits with diverse heritabilities [tree height (HT) and wood density (WD)] were assessed at various levels of family genotyping efforts (0, 25, 50, 75, and 100%) from a population of white spruce (Picea glauca) consisting of 1694 trees from 214 open-pollinated families, representing 43 provenances in Québec, Canada. The results revealed that HBLUP bivariate analysis is effective in reducing the known bias in heritability estimates of open-pollinated populations, as it exposes hidden relatedness, potential pedigree errors, and inbreeding. The addition of genomic information in the analysis considerably improved the accuracy in breeding value estimates by accounting for both Mendelian sampling and historical coancestry that were not captured by the contemporary pedigree alone. Increasing family genotyping efforts were associated with continuous improvement in model fit, precision of genetic parameters, and breeding value accuracy. Yet, improvements were observed even at minimal genotyping effort, indicating that even modest genotyping effort is effective in improving genetic evaluation. The combined utilization of both pedigree and genomic information may be a cost-effective approach to increase the accuracy of breeding values in forest tree breeding programs where shallow pedigrees and large testing populations are the norm.
    Type of Medium: Online Resource
    ISSN: 2160-1836
    URL: Article
    DOI: 10.1534/g3.116.037895
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2017
    detail.hit.zdb_id: 2629978-1
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 4
    Online Resource
    Online Resource
    High-resolution genetic mapping of allelic variants associated with cell wall chemistry in Populus
    Springer Science and Business Media LLC ; 2015
    In:  BMC Genomics Vol. 16, No. 1 ( 2015-12)
    Details
    In: BMC Genomics, Springer Science and Business Media LLC, Vol. 16, No. 1 ( 2015-12)
    Type of Medium: Online Resource
    ISSN: 1471-2164
    URL: Article
    DOI: 10.1186/s12864-015-1215-z
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2015
    detail.hit.zdb_id: 2041499-7
    SSG: 12
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 5
    Online Resource
    Online Resource
    Genome-wide identification of late embryogenesis abundant protein family and their key regulatory network in Pinus tabuliformis cold acclimation
    Oxford University Press (OUP) ; 2023
    In:  Tree Physiology ( 2023-08-11)
    Details
    In: Tree Physiology, Oxford University Press (OUP), ( 2023-08-11)
    Abstract: Cold acclimation is a crucial biological process that enables conifers to overwinter safely. The late embryogenesis abundant (LEA) protein family plays a pivotal role in enhancing freezing tolerance during this process. Despite its importance, the identification, molecular functions and regulatory networks of the LEA protein family have not been extensively studied in conifers or gymnosperms. Pinus tabuliformis, a conifer with high ecological and economic values and with high-quality genome sequence, is an ideal candidate for such studies. Here, a total of 104 LEA genes were identified from P. tabuliformis, and we renamed them according to their subfamily group: PtLEA1–PtLEA92 (group LEA1–LEA6), PtSMP1–PtSMP6 (group seed maturation protein) and PtDHN1–PtDHN6 (group Dehydrin). While the sequence structure of P. tabuliformis  LEA genes are conserved, their physicochemical properties exhibit unique characteristics within different subfamily groupings. Notably, the abundance of low-temperature responsive elements in PtLEA genes was observed. Using annual rhythm and temperature gradient transcriptome data, PtLEA22 was identified as a key gene that responds to low-temperature induction while conforming to the annual cycle of cold acclimation. Overexpression of PtLEA22 enhanced Arabidopsis freezing tolerance. Furthermore, several transcription factors potentially co-expressed with PtLEA22 were validated using yeast one-hybrid and dual-luciferase assays, revealing that PtDREB1 could directly bind PtLEA22 promoter to positively regulate its expression. These findings reveal the genome-wide characterization of P. tabuliformis  LEA genes and their importance in the cold acclimation, while providing a theoretical basis for studying the molecular mechanisms of cold acclimation in conifers.
    Type of Medium: Online Resource
    ISSN: 1758-4469
    URL: Article
    DOI: 10.1093/treephys/tpad095
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2023
    detail.hit.zdb_id: 1473475-8
    SSG: 12
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 6
    Online Resource
    Online Resource
    Genetic architecture of the metabolic pathway of salicylic acid biosynthesis in Populus
    Oxford University Press (OUP) ; 2021
    In:  Tree Physiology Vol. 41, No. 11 ( 2021-11-08), p. 2198-2215
    Details
    In: Tree Physiology, Oxford University Press (OUP), Vol. 41, No. 11 ( 2021-11-08), p. 2198-2215
    Abstract: Salicylic acid (SA) is a vital hormone for adaptive responses to biotic and abiotic stresses, which facilitates growth-immunity trade-offs in plants. However, the genetic regulatory networks underlying the metabolic pathway of SA biosynthesis in perennial species remain unclear. Here, we integrated genome-wide association study (GWAS) with metabolite and expression profiling methodologies to dissect the genetic architecture of SA biosynthesis in Populus. First, we quantified nine intermediate metabolites of SA biosynthesis in 300 unrelated Populus tomentosa Carr. individuals. Then, we used a systematic genetic strategy to identify candidate genes for constructing the genetic regulatory network of SA biosynthesis. We focused on WRKY70, an efficient transcription factor, as the key causal gene in the regulatory network, and combined the novel genes coordinating the accumulation of SA. Finally, we identified eight GWAS signals and eight expression quantitative trait loci situated in a selective sweep, and showed the presence of large allele frequency differences among the three geographic populations, revealing that candidate genes subject to selection were involved in SA biosynthesis. This study provides an integrated strategy for dissecting the genetic architecture of the metabolic pathway of SA biosynthesis in Populus, thereby enhancing our understanding of genetic regulation of SA biosynthesis in trees, and accelerating marker-assisted breeding efforts toward high-resistance elite varieties of Populus.
    Type of Medium: Online Resource
    ISSN: 1758-4469
    URL: Article
    DOI: 10.1093/treephys/tpab068
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
    detail.hit.zdb_id: 1473475-8
    SSG: 12
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 7
    Online Resource
    Online Resource
    UV - B and UV - C radiation trigger both common and distinctive signal perceptions and transmissions in Pinus tabuliformis Carr.
    Oxford University Press (OUP) ; 2022
    In:  Tree Physiology Vol. 42, No. 8 ( 2022-08-06), p. 1587-1600
    Details
    In: Tree Physiology, Oxford University Press (OUP), Vol. 42, No. 8 ( 2022-08-06), p. 1587-1600
    Abstract: In plants, ultraviolet (UV)-light is an important driver for growth and natural distribution, and is also a valuable tool for manipulating productivity as well as biotic interactions. Understanding of plant responses to different UV radiation is sparse, especially from a systems biology perspective and particularly for conifers. Here, we evaluated the physiological and transcriptomic responses to the short-term application of high-irradiance UV-B and UV-C waves on Pinus tabuliformis Carr., a major conifer in Northern China. By undertaking time-ordered gene coexpression network analyses and network comparisons incorporating physiological traits and gene expression variation, we uncovered communalities but also differences in P. tabuliformis responses to UV-B and UV-C. Both types of spectral bands caused a significant inhibition of photosynthesis, and conversely, the improvement of antioxidant capacity, flavonoid production and signaling pathways related to stress resistance, indicating a clear switch from predominantly primary metabolism to enhanced defensive metabolism in pine. We isolated distinct subnetworks for photoreceptor-mediated signal transduction, maximum quantum efficiency of photosystem II (Fv/Fm) regulation and flavonoid biosynthesis in response to UV-B and UV-C radiation. From these subnetworks, we further identified phototropins as potentially important elements in both UV-B and UV-C signaling and, for the first time, suggesting peptide hormones to be involved in promoting flavonoid biosynthesis against UV-B, while these hormones seem not to be implicated in the defense against UV-C exposure. The present study employed an effective strategy for disentangling the complex physiological and genetic regulatory mechanisms in a nonmodel plant species, and thus, provides a suitable reference for future functional evaluations and artificial UV-light mediated growing strategies in plant production.
    Type of Medium: Online Resource
    ISSN: 1758-4469
    URL: Article
    DOI: 10.1093/treephys/tpac021
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2022
    detail.hit.zdb_id: 1473475-8
    SSG: 12
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 8
    Online Resource
    Online Resource
    Deriving internal crown geometric features of Douglas-fir from airborne laser scanning in a realized-gain trial
    Oxford University Press (OUP) ; 2021
    In:  Forestry: An International Journal of Forest Research Vol. 94, No. 3 ( 2021-05-04), p. 442-454
    Details
    In: Forestry: An International Journal of Forest Research, Oxford University Press (OUP), Vol. 94, No. 3 ( 2021-05-04), p. 442-454
    Abstract: Tree improvement programs are critical to establishing high yield seed sources while maintaining genetic diversity and developing sustainable plantation forests. Douglas-fir (Pseudotsuga menziesii (Mirb.) Franco) is commonly used in improvement programs due to its superior strength and stiffness properties. Progeny testing trials in British Columbia (BC), Canada aim to increase stem volume without sacrificing wood quality. As genetically improved stock in BC is entering its fourth generation, wood quality and branch attributes are becoming more important as selection criteria evolve. This study investigates the utility of Airborne Laser Scanning (ALS) to produce metrics that describe branch attributes, and test whether these attributes showed differences in trees of three different genetic gain levels (GL); Wild-Stand (WS), Mid-Gain (MG) and Top-Cross (TC), planted at two different spacings (2.9 m and 4.0 m) in a realized-gain trial. New methods were developed to utilize ALS data to estimate metrics such as branch angle, length and volume using a point clustering approach. The relative impact of GL and spacing on branch attributes were assessed. Spacing was significant for branch angle (2.9 m = 73.53°, 4.0 m = 72.46°), whereas GL (WS = 0.861 m, MG = 0.917 m, TC = 0.948 m) and spacing (2.9 m = 0.884, 4.0 m = 0.942) were significant for length. For all metrics, TC trees at 4.0 m spacing were consistently significantly different whenever GL or the interaction effect was significant. This data provide an insight into how ALS can be used to model branch attributes, whereas the ability to analyse trees by plot, individual tree and individual branch attributes further allows researchers and foresters to maximize the value of ALS data. Findings from this research can be integrated into large-scale programs not just for monitoring trees, but also for identifying new trees that can display attributes associated with larger volumes and increased value.
    Type of Medium: Online Resource
    ISSN: 0015-752X , 1464-3626
    URL: Article
    DOI: 10.1093/forestry/cpaa046
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
    detail.hit.zdb_id: 1466705-8
    SSG: 23
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 9
    Online Resource
    Online Resource
    Growth, morphology, and cold hardiness of Chamaecyparis nootkatensis seedlings originating from an abbreviated reproductive cycle
    Canadian Science Publishing ; 2002
    In:  Canadian Journal of Forest Research Vol. 32, No. 1 ( 2002-01-01), p. 52-58
    Details
    In: Canadian Journal of Forest Research, Canadian Science Publishing, Vol. 32, No. 1 ( 2002-01-01), p. 52-58
    Abstract: A common garden study investigated growth, morphology, and cold hardiness of yellow-cedar (Chamaecyparis nootkatensis (D. Don) Spach) seedlings originating from seed that had matured at an accelerated rate. This early maturing seed, produced at a low-elevation southern Vancouver Island seed orchard, was known to have similar germinability and seedling morphology as high-elevation normally maturing seeds. Population differences in 3-year-old seedlings were evident only in shoot harvest index (ratio of stem/shoot dry weight). The amount of stem elongation that occurred prior to the formation of secondary foliage (juvenile height) and harvest index were weakly correlated with source elevation at which maternal parents were developed. Traits that exhibited no discernable differences between progeny from early maturing seed and the control normally maturing seed included midwinter cold hardiness testing and selected measures of shoot morphology and growth. The control seedlings had significantly less height growth prior to the transition of primary foliage to secondary foliage formation than did the seedlings originating from early maturing seed.
    Type of Medium: Online Resource
    ISSN: 0045-5067 , 1208-6037
    URL: Article
    DOI: 10.1139/x01-167
    Language: English
    Publisher: Canadian Science Publishing
    Publication Date: 2002
    detail.hit.zdb_id: 1473096-0
    SSG: 23
    SSG: 12
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 10
    Online Resource
    Online Resource
    Haplotype-resolved genome assembly and allele-specific gene expression in cultivated ginger
    Oxford University Press (OUP) ; 2021
    In:  Horticulture Research Vol. 8 ( 2021-12-01)
    Details
    In: Horticulture Research, Oxford University Press (OUP), Vol. 8 ( 2021-12-01)
    Abstract: Ginger (Zingiber officinale) is one of the most valued spice plants worldwide; it is prized for its culinary and folk medicinal applications and is therefore of high economic and cultural importance. Here, we present a haplotype-resolved, chromosome-scale assembly for diploid ginger anchored to 11 pseudochromosome pairs with a total length of 3.1 Gb. Remarkable structural variation was identified between haplotypes, and two inversions larger than 15 Mb on chromosome 4 may be associated with ginger infertility. We performed a comprehensive, spatiotemporal, genome-wide analysis of allelic expression patterns, revealing that most alleles are coordinately expressed. The alleles that exhibited the largest differences in expression showed closer proximity to transposable elements, greater coding sequence divergence, more relaxed selection pressure, and more transcription factor binding site differences. We also predicted the transcription factors potentially regulating 6-gingerol biosynthesis. Our allele-aware assembly provides a powerful platform for future functional genomics, molecular breeding, and genome editing in ginger.
    Type of Medium: Online Resource
    ISSN: 2052-7276
    URL: Article
    DOI: 10.1038/s41438-021-00599-8
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
    detail.hit.zdb_id: 2781828-7
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
Close ⊗
This website uses cookies and the analysis tool Matomo. More information can be found here...