Incorporating topographic factors in nonlinear mixed-effects models for aboveground biomass of natural Simao pine in Yunnan, China

Ou, Guanglong; Wang, Junfeng; Xu, Hui; Chen, Keyi; Zheng, Haimei; Zhang, Bo; Sun, Xiaomin; Xu, Tingting; Xiao, Yifa

doi:10.1007/s11676-015-0143-8

Cited by 22 publications

(19 citation statements)

References 64 publications

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“…In this study, PIC ranged from 0.43 to 0.77, with an average of 0.63, indicating that the SRAP markers could develop high loci polymorphism useful for genetic variation of accessions studied in this research (Talebi et al, 2015). The percentage of polymorphic bands (P) of Simao pine was 93.46%, revealing a considerable level of genetic diversity, similar to that of its relatives Pinus yunnanensis (P = 96.43%; Xu et al, 2016). At a species level, Nei's genetic PeerJ reviewing PDF | (2018:08:30615:4:0:CHECK 22 Jan 2019)…”

Section: Discussionmentioning

confidence: 64%

“…Gaussen), a geographic variant of Pinus kesiya, is distributed naturally in the humid and sub-humid areas of the tropical and subtropical zone within Yunnan Province (Wang et al, 2012). The species is one of the most important timber and resin production trees in China (Chen et al, 2002;Cai et al, 2017;Zhu et al, 2017;Wang et al, 2018), and also has ecological and social benefits, in addition to economic ones (Ou et al, 2016;. There is high potential for over utilization of the tree species and Simao pine breeding programs are constrained by a narrow genetic background and overexploitation (Zhao et al, 2016).…”

Section: Introductionmentioning

confidence: 99%

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Peer Review #1 of "Genetic diversity of Simao pine in China revealed by SRAP markers (v0.1)"

2019

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Background. Simao pine (Pinus kesiya Royle ex Gordon var. langbianensis (A. Chev.) Gaussen), is one of the most important tree species in the production of timber and resin in China. However, the genetic diversity of the natural populations has not been assessed to date. In this study, sequence related amplified polymorphism (SRAP) markers were used to investigate the genetic composition of natural Simao pine populations. Method. The SRAP markers were applied and their efficiency was compared using various statistical multivariate methods, including analysis molecular of variance (AMOVA), the unweighted pair group method with arithmetic mean (UPGMA), and Principal coordinate analysis (PCoA). Results. The 11 populations reveal ed a high level of genetic diversity (PPB = 95.45%, H = 0.4567, I = 0.6484) at the species level. A moderately low level of genetic differentiation (G st = 0.1701), and a slightly high level of gene flow (N m = 2.4403) were observed among populations using AMOVA. Eleven populations of Simao pine were gathered into four distinct clusters based on molecular data, and the results of UPGMA and PCoA also illustrated that assignment of populations is not completely consistent with geographic origin. The Mantel test revealed there was no significant correlation between geographic and genetic distance (r = 0.241, p = 0.090). Discussion. The SRAP markers were very effective in the assessment of genetic diversity in Simao pine. Simao pine populations display high levels of genetic diversity and low or moderate levels of genetic differentiation due to frequent gene exchange among populations. The low genetic differentiation among populations implied that conservation efforts should aim to preserve all remaining natural populations of this species. The information derived from this study is useful when identifying populations and categorizing their population origins, making possible the design of long term management program such as genetic improvement by selective breeding.

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Section: Discussionmentioning

confidence: 64%

Section: Introductionmentioning

confidence: 99%

Peer Review #1 of "Genetic diversity of Simao pine in China revealed by SRAP markers (v0.1)"

2019

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“…Mixed-effect biomass models are analyzed in different forms. Ou et al [39] for example defined nonlinear mixed-effects models for aboveground biomass of natural Simao pine in Yunnan (China), whereas Fehrmann et al [36] developed linear mixed-effects models for logarithmic biomass based on the national forest inventory of Finland's forests. Furthermore Pearce et al [40] defined linear mixed-effects models for estimating biomass and fuel loads in shrublands.…”

Section: Introductionmentioning

confidence: 99%

Seemingly Unrelated Mixed-Effects Biomass Models for Young Silver Birch Stands on Post-Agricultural Lands

Bronisz

Mehtätalo

2020

Forests

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Secondary succession that occurs on abandoned farmlands is an important source of biomass carbon stocks. Both direct and indirect tree biomass estimation methods are applied on forest lands. Using empirical data from 148 uprooted trees, we developed a seemingly unrelated mixed-effects models system for the young silver birch that grows on post agricultural lands in central Poland. Tree height, biomass of stem, branches, foliage, and roots are used as dependent variables; the diameter at breast height is used as the independent variable. During model elaboration we used restricted cubic spline: 5 knots at the quantiles (0.05, 0.275, 0.5, 0.725, and 0.95) of diameter at breast height provided sufficiently flexible curves for all biomass components. In this study, we demonstrate the use of the model system through cross-model calibration of the biomass component model using tree height measured from 0, 2, 3, and 4 available extreme trees feature in the plot in question. A different number of extreme trees were measured for final model system and our results indicated that for all analyzed components, random-effect predictions are characterized by higher accuracy than fixed-effects predictions.

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“…It is mainly distributed in the mountainous areas where altitudes ranging from 600 to 1800 m of Pu'er, Xishuangbanna and Lincang city in Yunnan Province (Zhu et al, 2017;Li et al, 2018). Compared with other conifer tree species, it has unique rapid growth characteristics that its branches can grow 2 or more rounds a year (Xu et al, 2012;Ou et al, 2016), and its timber is widely used in ber, furniture, and the building industry (Cai et al, 2017). In addition, Simao pine is not only a high economical plant for its high turpentine output (Dong et al, 2009;Wang et al, 2018), but also an important species in forest ecosystem for the function of carbon sequestration biological and water conservation (Wen et al, 2010;Zhu et al, 2016;Cao & Zhang, 2017;Li et al, 2017).…”

Section: Introductionmentioning

confidence: 99%

QTL Mapping for Growth-Related Traits by Constructing the First Genetic Linkage Map in Simao pine

Wang

Shi

et al. 2020

Preprint

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Simao pine is one of primary economic tree species for resin and timber production in southwest China, the exploitation and utilization are constrained by relatively lacking the genetic information. Construction a fine genetic linkage map and detecting QTLs for growth-related traits is an important section in molecular breeding program for Simao Pine. In our study, a high-resolution Simao pine genetic map employing specific locus amplified fragment sequencing (SLAF-seq) with an F1 population has been constructed. There were 11,544 SNPs assigned to 12 linkage groups in the map, and the total length of the map was 2,062.85 cM with a mean distance of 0.37 cM between markers. According to the phenotypic variation analysis during three consecutive years, seventeen QTLs for four traits which including six for plant height (Dh.16.1, Dh16.2, Dh17.1, Dh18.1-3), five for basal diameter (Dbd.17.1-5), four for needle length (Dnl17.1-3, Dnl18.1) and two for needle diameter (Dnd17.1 and Dnd18.1) were identified. These QTLs individually explained phenotypic variance from 11.0-16.3 %, and the LOD value ranged from 2.52 to 3.87. The result in this study provide helpful information for genomic studies and marker-assisted selection (MAS) in Simao pine.

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Incorporating topographic factors in nonlinear mixed-effects models for aboveground biomass of natural Simao pine in Yunnan, China

Cited by 22 publications

References 64 publications

Peer Review #1 of "Genetic diversity of Simao pine in China revealed by SRAP markers (v0.1)"

Peer Review #1 of "Genetic diversity of Simao pine in China revealed by SRAP markers (v0.1)"

Seemingly Unrelated Mixed-Effects Biomass Models for Young Silver Birch Stands on Post-Agricultural Lands

QTL Mapping for Growth-Related Traits by Constructing the First Genetic Linkage Map in Simao pine

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