Records |
Author |
Shi, P.; Gielis, J.; Quinn, B.K.; Niklas, K.J.; Ratkowsky, D.A.; Schrader, J.; Ruan, H.; Wang, L.; Niinemets, Ü.; Niinennets, U. |
Title |
‘biogeom’ : an R package for simulating and fitting natural shapes |
Type |
A1 Journal article |
Year |
2022 |
Publication |
Annals of the New York Academy of Sciences |
Abbreviated Journal |
Ann Ny Acad Sci |
Volume |
1516 |
Issue |
1 |
Pages |
123-134 |
Keywords |
A1 Journal article; Engineering sciences. Technology; Sustainable Energy, Air and Water Technology (DuEL) |
Abstract |
Many natural objects exhibit radial or axial symmetry in a single plane. However, a universal tool for simulating and fitting the shapes of such objects is lacking. Herein, we present an R package called 'biogeom' that simulates and fits many shapes found in nature. The package incorporates novel universal parametric equations that generate the profiles of bird eggs, flowers, linear and lanceolate leaves, seeds, starfish, and tree-rings, and three growth-rate equations that generate the profiles of ovate leaves and the ontogenetic growth curves of animals and plants. 'biogeom' includes several empirical datasets comprising the boundary coordinates of bird eggs, fruits, lanceolate and ovate leaves, tree rings, seeds, and sea stars. The package can also be applied to other kinds of natural shapes similar to those in the datasets. In addition, the package includes sigmoid curves derived from the three growth-rate equations, which can be used to model animal and plant growth trajectories and predict the times associated with maximum growth rate. 'biogeom' can quantify the intra- or interspecific similarity of natural outlines, and it provides quantitative information of shape and ontogenetic modification of shape with important ecological and evolutionary implications for the growth and form of the living world. |
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Corporate Author |
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Thesis |
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Publisher |
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Place of Publication |
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Editor |
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Language |
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Wos |
000829772300001 |
Publication Date |
2022-07-26 |
Series Editor |
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Series Title ![sorted by Series Title field, ascending order (up)](img/sort_asc.gif) |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
0077-8923; 1749-6632 |
ISBN |
|
Additional Links |
UA library record; WoS full record; WoS citing articles |
Impact Factor |
5.2 |
Times cited |
|
Open Access |
OpenAccess |
Notes |
|
Approved |
Most recent IF: 5.2 |
Call Number |
UA @ admin @ c:irua:189314 |
Serial |
7131 |
Permanent link to this record |
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Author |
Shi, P.; Gielis, J.; Niklas, K.J. |
Title |
Comparison of a universal (but complex) model for avian egg shape with a simpler model |
Type |
Editorial |
Year |
2022 |
Publication |
Annals of the New York Academy of Sciences |
Abbreviated Journal |
Ann Ny Acad Sci |
Volume |
1514 |
Issue |
1 |
Pages |
34-42 |
Keywords |
Editorial; Engineering sciences. Technology; Sustainable Energy, Air and Water Technology (DuEL) |
Abstract |
Recently, a universal equation by Narushin, Romanov, and Griffin (hereafter, the NRGE) was proposed to describe the shape of avian eggs. While NRGE can simulate the shape of spherical, ellipsoidal, ovoidal, and pyriform eggs, its predictions were not tested against actual data. Here, we tested the validity of the NRGE by fitting actual data of egg shapes and compared this with the predictions of our simpler model for egg shape (hereafter, the SGE). The eggs of nine bird species were sampled for this purpose. NRGE was found to fit the empirical data of egg shape well, but it did not define the egg length axis (i.e., the rotational symmetric axis), which significantly affected the prediction accuracy. The egg length axis under the NRGE is defined as the maximum distance between two points on the scanned perimeter of the egg's shape. In contrast, the SGE fitted the empirical data better, and had a smaller root-mean-square error than the NRGE for each of the nine eggs. Based on its mathematical simplicity and goodness-of-fit, the SGE appears to be a reliable and useful model for describing egg shape. |
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Corporate Author |
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Thesis |
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Publisher |
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Place of Publication |
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Editor |
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Language |
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Wos |
000803394100001 |
Publication Date |
2022-06-01 |
Series Editor |
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Series Title ![sorted by Series Title field, ascending order (up)](img/sort_asc.gif) |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
|
ISSN |
0077-8923; 1749-6632 |
ISBN |
|
Additional Links |
UA library record; WoS full record; WoS citing articles |
Impact Factor |
5.2 |
Times cited |
|
Open Access |
OpenAccess |
Notes |
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Approved |
Most recent IF: 5.2 |
Call Number |
UA @ admin @ c:irua:188470 |
Serial |
7139 |
Permanent link to this record |
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Author |
Li, Y.; Niklas, K.J.; Gielis, J.; Niinemets, Ü.; Schrader, J.; Wang, R.; Shi, P. |
Title |
An elliptical blade is not a true ellipse, but a superellipse : evidence from two Michelia species |
Type |
A1 Journal article |
Year |
2022 |
Publication |
Journal of forestry research |
Abbreviated Journal |
J Forestry Res |
Volume |
33 |
Issue |
4 |
Pages |
1341-1348 |
Keywords |
A1 Journal article; Sustainable Energy, Air and Water Technology (DuEL) |
Abstract |
The shape of leaf laminae exhibits considerable diversity and complexity that reflects adaptations to environmental factors such as ambient light and precipitation as well as phyletic legacy. Many leaves appear to be elliptical which may represent a ‘default’ developmental condition. However, whether their geometry truly conforms to the ellipse equation (EE), i.e., (x/a)2 + (y/b)2 = 1, remains conjectural. One alternative is described by the superellipse equation (SE), a generalized version of EE, i.e., |x/a|n +|y/b|n = 1. To test the efficacy of EE versus SE to describe leaf geometry, the leaf shapes of two Michelia species (i.e., M. cavaleriei var. platypetala, and M. maudiae), were investigated using 60 leaves from each species. Analysis shows that the majority of leaves (118 out of 120) had adjusted root-mean-square errors of < 0.05 for the nonlinear fitting of SE to leaf geometry, i.e., the mean absolute deviation from the polar point to leaf marginal points was smaller than 5% of the radius of a hypothesized circle with its area equaling leaf area. The estimates of n for the two species were ˂ 2, indicating that all sampled leaves conformed to SE and not to EE. This study confirms the existence of SE in leaves, linking this to its potential functional advantages, particularly the possible influence of leaf shape on hydraulic conductance. |
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Corporate Author |
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Thesis |
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Publisher |
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Place of Publication |
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Editor |
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Language |
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Wos |
000695118600001 |
Publication Date |
2021-09-12 |
Series Editor |
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Series Title ![sorted by Series Title field, ascending order (up)](img/sort_asc.gif) |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
|
ISSN |
1007-662x; 1993-0607 |
ISBN |
|
Additional Links |
UA library record; WoS full record; WoS citing articles |
Impact Factor |
3 |
Times cited |
|
Open Access |
OpenAccess |
Notes |
|
Approved |
Most recent IF: 3 |
Call Number |
UA @ admin @ c:irua:180967 |
Serial |
7152 |
Permanent link to this record |
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Author |
Niklas, K.J.; Shi, P.; Gielis, J.; Schrader, J.; Niinemets, U. |
Title |
Editorial: leaf functional traits : ecological and evolutionary implications |
Type |
Editorial |
Year |
2023 |
Publication |
Frontiers in plant science |
Abbreviated Journal |
|
Volume |
14 |
Issue |
|
Pages |
1169558-5 |
Keywords |
Editorial; Sustainable Energy, Air and Water Technology (DuEL) |
Abstract |
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Address |
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Corporate Author |
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Thesis |
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Publisher |
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Place of Publication |
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Editor |
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Language |
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Wos |
000964122500001 |
Publication Date |
2023-03-21 |
Series Editor |
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Series Title ![sorted by Series Title field, ascending order (up)](img/sort_asc.gif) |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
|
ISSN |
1664-462x |
ISBN |
|
Additional Links |
UA library record; WoS full record; WoS citing articles |
Impact Factor |
5.6 |
Times cited |
|
Open Access |
OpenAccess |
Notes |
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Approved |
Most recent IF: 5.6; 2023 IF: 4.298 |
Call Number |
UA @ admin @ c:irua:196076 |
Serial |
7834 |
Permanent link to this record |
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Author |
Huang, W.; Su, X.; Ratkowsky, D.A.; Niklas, K.J.; Gielis, J.; Shi, P. |
Title |
The scaling relationships of leaf biomass vs. leaf surface area of 12 bamboo species |
Type |
A1 Journal article |
Year |
2019 |
Publication |
Global ecology and conservation |
Abbreviated Journal |
|
Volume |
20 |
Issue |
|
Pages |
e00793 |
Keywords |
A1 Journal article; Engineering sciences. Technology; Sustainable Energy, Air and Water Technology (DuEL) |
Abstract |
There is convincing evidence for a scaling relationship between leaf dry weight (DW) and leaf surface area (A) for broad-leaved plants, and most estimates of the scaling exponent of DW vs. A are greater than unity. However, the scaling relationship of leaf fresh weight (FW) vs. A has been largely neglected. In the present study, we examined whether there is a statistically strong scaling relationship between FW and A and compared the goodness of fit to that of DW vs. A. Between 250 and 520 leaves from each of 12 bamboo species within 2 genera (Phyllostachys and Pleioblastus) were investigated. The reduced major axis regression protocols were used to determine scaling relationships. The fit for the linearized scaling relationship of FW vs. A was compared with that of DW vs. A using the coefficient of determination (i.e., r2). A stronger scaling relationship between FW and A than that between DW and A was observed for each of the 12 bamboo species investigated. Among the 12 species examined, five had significantly smaller scaling exponents of FW vs. A compared to those of DW vs. A; only one species had a scaling exponent of FW vs. A greater than that of DW vs. A. No significant difference between the two scaling exponents was observed for the remaining 6 species. Researchers conducting future studies might be well advised to consider the influence of leaf fresh weight when exploring the scaling relationships of foliar biomass allocation patterns. |
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Corporate Author |
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Thesis |
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Publisher |
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Place of Publication |
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Editor |
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Language |
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Wos |
000498226800095 |
Publication Date |
2019-09-19 |
Series Editor |
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Series Title ![sorted by Series Title field, ascending order (up)](img/sort_asc.gif) |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
2351-9894; 2351-9894 |
ISBN |
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Additional Links |
UA library record; WoS full record; WoS citing articles |
Impact Factor |
|
Times cited |
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Open Access |
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Notes |
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Approved |
no |
Call Number |
UA @ admin @ c:irua:162954 |
Serial |
8497 |
Permanent link to this record |
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Author |
Huang, W.; Li, Y.; Niklas, K.J.; Gielis, J.; Ding, Y.; Cao, L.; Shi, P. |
Title |
A superellipse with deformation and its application in describing the cross-sectional shapes of a square bamboo |
Type |
A1 Journal article |
Year |
2020 |
Publication |
Symmetry-Basel |
Abbreviated Journal |
Symmetry-Basel |
Volume |
12 |
Issue |
12 |
Pages |
2073 |
Keywords |
A1 Journal article; Engineering sciences. Technology; Sustainable Energy, Air and Water Technology (DuEL) |
Abstract |
Many cross-sectional shapes of plants have been found to approximate a superellipse rather than an ellipse. Square bamboos, belonging to the genus Chimonobambusa (Poaceae), are a group of plants with round-edged square-like culm cross sections. The initial application of superellipses to model these culm cross sections has focused on Chimonobambusa quadrangularis (Franceschi) Makino. However, there is a need for large scale empirical data to confirm this hypothesis. In this study, approximately 750 cross sections from 30 culms of C. utilis were scanned to obtain cross-sectional boundary coordinates. A superellipse exhibits a centrosymmetry, but in nature the cross sections of culms usually deviate from a standard circle, ellipse, or superellipse because of the influences of the environment and terrain, resulting in different bending and torsion forces during growth. Thus, more natural cross-sectional shapes appear to have the form of a deformed superellipse. The superellipse equation with a deformation parameter (SEDP) was used to fit boundary data. We find that the cross-sectional shapes (including outer and inner rings) of C. utilis can be well described by SEDP. The adjusted root-mean-square error of SEDP is smaller than that of the superellipse equation without a deformation parameter. A major finding is that the cross-sectional shapes can be divided into two types of superellipse curves: hyperellipses and hypoellipses, even for cross sections from the same culm. There are two proportional relationships between ring area and the product of ring length and width for both the outer and inner rings. The proportionality coefficients are significantly different, as a consequence of the two different superellipse types (i.e., hyperellipses and hypoellipses). The difference in the proportionality coefficients between hyperellipses and hypoellipses for outer rings is greater than that for inner rings. This work informs our understanding and quantifying of the longitudinal deformation of plant stems for future studies to assess the influences of the environment on stem development. This work is also informative for understanding the deviation of natural shapes from a strict rotational symmetry. |
Address |
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Corporate Author |
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Thesis |
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Publisher |
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Place of Publication |
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Editor |
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Language |
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Wos |
000602546300001 |
Publication Date |
2020-12-15 |
Series Editor |
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Series Title ![sorted by Series Title field, ascending order (up)](img/sort_asc.gif) |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
2073-8994 |
ISBN |
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Additional Links |
UA library record; WoS full record; WoS citing articles |
Impact Factor |
2.7 |
Times cited |
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Open Access |
|
Notes |
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Approved |
Most recent IF: 2.7; 2020 IF: 1.457 |
Call Number |
UA @ admin @ c:irua:174472 |
Serial |
8622 |
Permanent link to this record |
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Author |
Shi, P.; Chen, L.; Quinn, B.K.; Yu, K.; Miao, Q.; Guo, X.; Lian, M.; Gielis, J.; Niklas, K.J. |
Title |
A simple way to calculate the volume and surface area of avian eggs |
Type |
A1 Journal article |
Year |
2023 |
Publication |
Annals of the New York Academy of Sciences |
Abbreviated Journal |
|
Volume |
1524 |
Issue |
1 |
Pages |
118-131 |
Keywords |
A1 Journal article; Engineering sciences. Technology; Sustainable Energy, Air and Water Technology (DuEL) |
Abstract |
Egg geometry can be described using Preston's equation, which has seldom been used to calculate egg volume (V) and surface area (S) to explore S versus V scaling relationships. Herein, we provide an explicit re-expression of Preston's equation (designated as EPE) to calculate V and S, assuming that an egg is a solid of revolution. The side (longitudinal) profiles of 2221 eggs of six avian species were digitized, and the EPE was used to describe each egg profile. The volumes of 486 eggs from two avian species predicted by the EPE were compared with those obtained using water displacement in graduated cylinders. There was no significant difference in V using the two methods, which verified the utility of the EPE and the hypothesis that eggs are solids of revolution. The data also indicated that V is proportional to the product of egg length (L) and maximum width (W) squared. A 2/3-power scaling relationship between S and V for each species was observed, that is, S is proportional to (LW2)(2/3). These results can be extended to describe the shapes of the eggs of other species to study the evolution of avian (and perhaps reptilian) eggs. |
Address |
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Corporate Author |
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Thesis |
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Publisher |
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Place of Publication |
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Editor |
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Language |
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Wos |
000975679400001 |
Publication Date |
2023-04-28 |
Series Editor |
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Series Title ![sorted by Series Title field, ascending order (up)](img/sort_asc.gif) |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
0077-8923; 1749-6632 |
ISBN |
|
Additional Links |
UA library record; WoS full record; WoS citing articles |
Impact Factor |
5.2 |
Times cited |
|
Open Access |
OpenAccess |
Notes |
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Approved |
Most recent IF: 5.2; 2023 IF: 4.706 |
Call Number |
UA @ admin @ c:irua:196724 |
Serial |
8827 |
Permanent link to this record |
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Author |
Wang, L.; Shi, P.; Chen, L.; Gielis, J.; Niklas, K.J. |
Title |
Evidence that Chinese white olive (Canarium album(Lour.) DC.) fruits are solids of revolution |
Type |
A1 Journal article |
Year |
2023 |
Publication |
Botany letters |
Abbreviated Journal |
|
Volume |
|
Issue |
|
Pages |
1-7 |
Keywords |
A1 Journal article; Engineering sciences. Technology; Sustainable Energy, Air and Water Technology (DuEL) |
Abstract |
Although many fruit geometries resemble a solid of revolution, this assumption has rarely been rigorously examined. To test this assumption, 574 fruits of Canarium album (Lour.) DC. which appear to have an ellipsoidal shape, were examined to determine the validity of a general avian-based egg-shape equation, referred to as the explicit Preston equation (EPE). The assumption that the C. album fruit geometry is a solid of revolution is tested by applying the volume formula for a solid of revolution using the EPE. The goodness of fit of the EPE was assessed using the adjusted root-mean-square error (RMSEadj). The relationship between the observed volume (Vobs) of each fruit, as measured by water displacement in a graduated cylinder, and the predicted volumes (Vpre) based on the EPE was also evaluated using the equation Vpre = slope * Vobs. All the RMSEadj values were smaller than 0.05, which demonstrated the validity of the EPE based on C. album fruit profiles. The 95% confidence interval of the slope of Vpre vs. Vobs included 1.0, indicating that there was no significant difference between Vpre and Vobs. The data confirm that C. album fruits are solids of revolution. This study provides a new approach for calculating the volume and surface area of geometrically similar fruits, which can be extended to other species with similar fruit geometries to further explore the ontogeny and evolution of angiosperm reproductive organs. |
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Corporate Author |
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Thesis |
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Publisher |
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Place of Publication |
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Editor |
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Language |
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Wos |
001033135400001 |
Publication Date |
2023-07-25 |
Series Editor |
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Series Title ![sorted by Series Title field, ascending order (up)](img/sort_asc.gif) |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
2381-8107; 2381-8115 |
ISBN |
|
Additional Links |
UA library record; WoS full record; WoS citing articles |
Impact Factor |
1.5 |
Times cited |
|
Open Access |
Not_Open_Access: Available from 24.01.2024 |
Notes |
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Approved |
Most recent IF: 1.5; 2023 IF: NA |
Call Number |
UA @ admin @ c:irua:198001 |
Serial |
8864 |
Permanent link to this record |
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Author |
Lian, M.; Shi, P.; Zhang, L.; Yao, W.; Gielis, J.; Niklas, K.J. |
Title |
A generalized performance equation and its application in measuring the Gini index of leaf size inequality |
Type |
A1 Journal article |
Year |
2023 |
Publication |
Trees: structure and function |
Abbreviated Journal |
|
Volume |
37 |
Issue |
|
Pages |
1555-1565 |
Keywords |
A1 Journal article; Sustainable Energy, Air and Water Technology (DuEL) |
Abstract |
The goal of this study is to provide a rigorous tool to quantify the inequality of the leaf size distribution of an individual plant, thereby serving as a reference trait for quantifying plant adaptations to local environmental conditions. The tool to be presented and tested employs three components: (1) a performance equation (PE), which can produce flexible asymmetrical and symmetrical bell-shaped curves, (2) the Lorenz curve (i.e., the cumulative proportion of leaf size vs. the cumulative proportion of number of leaves), which is the basis for calculating, and (3) the Gini index, which measures the inequality of leaf size distribution. We sampled 12 individual plants of a dwarf bamboo and measured the area and dry mass of each leaf of each plant. We then developed a generalized performance equation (GPE) of which the PE is a special case and fitted the Lorenz curve to leaf size distribution using the GPE and PE. The GPE performed better than the PE in fitting the Lorenz curve. We compared the Gini index of leaf area distribution with that of leaf dry mass distribution and found that there was a significant difference between the two indices that might emerge from the scaling relationship between leaf dry mass and area. Nevertheless, there was a strong correlation between the two Gini indices (r2 = 0.9846). This study provides a promising tool based on the GPE for quantifying the inequality of leaf size distributions across individual plants and can be used to quantify plant adaptations to local environmental conditions. |
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Corporate Author |
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Thesis |
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Publisher |
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Place of Publication |
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Editor |
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Language |
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Wos |
001069570200001 |
Publication Date |
2023-08-26 |
Series Editor |
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Series Title ![sorted by Series Title field, ascending order (up)](img/sort_asc.gif) |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
0931-1890; 1432-2285 |
ISBN |
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Additional Links |
UA library record; WoS full record; WoS citing articles |
Impact Factor |
2.3 |
Times cited |
|
Open Access |
Not_Open_Access: Available from 26.02.2024 |
Notes |
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Approved |
Most recent IF: 2.3; 2023 IF: 1.842 |
Call Number |
UA @ admin @ c:irua:199562 |
Serial |
8874 |
Permanent link to this record |
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Author |
Shi, P.; Gielis, J.; Niklas, K.J.; Niinemets, Ü.; Schrader, J. |
Title |
Leaf functional traits : ecological and evolutionary implications |
Type |
ME3 Book as editor |
Year |
2023 |
Publication |
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Abbreviated Journal |
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Volume |
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Issue |
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Pages |
185 p. |
Keywords |
ME3 Book as editor; Sustainable Energy, Air and Water Technology (DuEL) |
Abstract |
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Address |
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Corporate Author |
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Thesis |
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Publisher |
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Place of Publication |
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Editor |
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Language |
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Wos |
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Publication Date |
2023-04-14 |
Series Editor |
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Series Title ![sorted by Series Title field, ascending order (up)](img/sort_asc.gif) |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
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ISBN |
978-2-8325-2086-4; 1664-8714 |
Additional Links |
UA library record |
Impact Factor |
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Times cited |
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Open Access |
OpenAccess |
Notes |
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Approved |
Most recent IF: NA |
Call Number |
UA @ admin @ c:irua:198002 |
Serial |
8894 |
Permanent link to this record |
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Author |
Li, Q.; Niklas, K.J.J.; Niinemets, U.; Zhang, L.; Yu, K.; Gielis, J.; Gao, J.; Shi, P. |
Title |
Stomatal shape described by a superellipse in four Magnoliaceae species |
Type |
A1 Journal article |
Year |
2023 |
Publication |
Botany letters |
Abbreviated Journal |
|
Volume |
|
Issue |
|
Pages |
1-9 |
Keywords |
A1 Journal article; Engineering sciences. Technology; Sustainable Energy, Air and Water Technology (DuEL) |
Abstract |
Stomata are essential for the exchange of water vapour and atmospheric gases between vascular plants and their external environments. The stomatal geometries of many plants appear to be elliptical. However, prior studies have not tested whether this is a mathematical reality, particularly since many natural shapes that appear to be ellipses are superellipses with greater or smaller edge curvature than predicted for an ellipse. Compared with the ellipse equation, the superellipse equation includes an additional parameter that allows generation of a larger range of shapes. We randomly selected 240 stomata from each of four Magnoliaceae species to test whether the stomatal geometries are superellipses or ellipses. The stomatal geometries for most stomata (943/960) were found to be described better using the superellipse equation. The traditional “elliptical stomata hypothesis” resulted in an underestimation of the area of stomata, whereas the superellipse equation accurately predicted stomatal area. This finding has important implications for the estimation of stomatal area in studies looking at stomatal shape, geometry, and function. |
Address |
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Corporate Author |
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Thesis |
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Publisher |
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Place of Publication |
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Editor |
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Language |
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Wos |
001024190300001 |
Publication Date |
2023-07-12 |
Series Editor |
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Series Title ![sorted by Series Title field, ascending order (up)](img/sort_asc.gif) |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
|
ISSN |
2381-8107; 2381-8115 |
ISBN |
|
Additional Links |
UA library record; WoS full record |
Impact Factor |
1.5 |
Times cited |
|
Open Access |
Not_Open_Access: Available from 12.01.2024 |
Notes |
|
Approved |
Most recent IF: 1.5; 2023 IF: NA |
Call Number |
UA @ admin @ c:irua:197847 |
Serial |
8935 |
Permanent link to this record |