<html lang="en"> <head> <title>Catch crop diversity increases rhizosphere carbon input and soil microbial biomass </title> <meta charset="utf-8"> <meta name="viewport" content="width=device-width, initial-scale=1.0"> <meta http-equiv="X-UA-Compatible" content="ie=edge"> <link href="https://unpkg.com/@stencila/thema@2/dist/themes/stencila/styles.css" rel="stylesheet"> <script src="https://unpkg.com/@stencila/thema@2/dist/themes/stencila/index.js" type="text/javascript"></script> <script src="https://unpkg.com/@stencila/components@<=1/dist/stencila-components/stencila-components.esm.js" type="module"></script> <script src="https://unpkg.com/@stencila/components@<=1/dist/stencila-components/stencila-components.js" type="text/javascript" nomodule=""></script> </head> <body> <main role="main"> <article itemscope="" itemtype="http://schema.org/Article" data-itemscope="root"> <h1 itemprop="headline">Catch crop diversity increases rhizosphere carbon input and soil microbial biomass</h1> <meta itemprop="image" content="https://via.placeholder.com/1200x714/dbdbdb/4a4a4a.png?text=Catch%20crop%20diversity%20increases%20rhizosphere%20carbon%20input%20and%20soil%20microbial%20biomass"> <ol data-itemprop="authors"> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Norman Gentsch"><span data-itemprop="givenNames"><span itemprop="givenName">Norman</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Gentsch</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Jens Boy"><span data-itemprop="givenNames"><span itemprop="givenName">Jens</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Boy</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Juan Daniel Kennedy Batalla"><span data-itemprop="givenNames"><span itemprop="givenName">Juan Daniel</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Kennedy Batalla</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Diana Heuermann"><span data-itemprop="givenNames"><span itemprop="givenName">Diana</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Heuermann</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Nicolaus von Wirén"><span data-itemprop="givenNames"><span itemprop="givenName">Nicolaus</span></span><span data-itemprop="familyNames"><span itemprop="familyName">von Wirén</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Dörte Schweneker"><span data-itemprop="givenNames"><span itemprop="givenName">Dörte</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Schweneker</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Ulf Feuerstein"><span data-itemprop="givenNames"><span itemprop="givenName">Ulf</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Feuerstein</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Jonas Groß"><span data-itemprop="givenNames"><span itemprop="givenName">Jonas</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Groß</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Bernahrd Bauer"><span data-itemprop="givenNames"><span itemprop="givenName">Bernahrd</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Bauer</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Barbara Reinhold-Hurek"><span data-itemprop="givenNames"><span itemprop="givenName">Barbara</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Reinhold-Hurek</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Thomas Hurek"><span data-itemprop="givenNames"><span itemprop="givenName">Thomas</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Hurek</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Fabricio Camacho Céspedes"><span data-itemprop="givenNames"><span itemprop="givenName">Fabricio</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Camacho Céspedes</span></span> </li> <li itemscope="" itemtype="http://schema.org/Person" itemprop="author"> <meta itemprop="name" content="Georg Guggenberger"><span data-itemprop="givenNames"><span itemprop="givenName">Georg</span></span><span data-itemprop="familyNames"><span itemprop="familyName">Guggenberger</span></span> </li> </ol><span itemscope="" itemtype="http://schema.org/Organization" itemprop="publisher"> <meta itemprop="name" content="Unknown"><span itemscope="" itemtype="http://schema.org/ImageObject" itemprop="logo"> <meta itemprop="url" content="https://via.placeholder.com/600x60/dbdbdb/4a4a4a.png?text=Unknown"> </span> </span><time itemprop="datePublished" datetime="2020-05-23">2020-05-23</time> <section data-itemprop="description"> <h2 data-itemtype="http://schema.stenci.la/Heading">Abstract</h2> <meta itemprop="description" content="Catch crops increase plant species richness in crop rotations, but are most often grown as pure stands. Here, we investigate..."> <p itemscope="" itemtype="http://schema.stenci.la/Paragraph">Catch crops increase plant species richness in crop rotations, but are most often grown as pure stands. Here, we investigate...</p> </section> <h3 itemscope="" itemtype="http://schema.stenci.la/Heading" id="results">Results</h3> <h4 itemscope="" itemtype="http://schema.stenci.la/Heading" id="plant-biomass-and-net-ecosystem-exchange">Plant biomass and net ecosystem exchange </h4> <p itemscope="" itemtype="http://schema.stenci.la/Paragraph">The NEE decreased significantly with increasing catch crop diversity (<a href="#fig1" itemscope="" itemtype="http://schema.stenci.la/Link">Fig. 1</a>), suggesting increasing <span itemscope="" itemtype="http://schema.stenci.la/MathFragment"><span class="mjx-chtml"><span class="mjx-math" aria-label="CO_2"><span class="mjx-mrow" aria-hidden="true"><span class="mjx-mi"><span class="mjx-char MJXc-TeX-math-I" style="padding-top: 0.519em; padding-bottom: 0.298em; padding-right: 0.045em;">C</span></span><span class="mjx-msubsup"><span class="mjx-base"><span class="mjx-mi"><span class="mjx-char MJXc-TeX-math-I" style="padding-top: 0.519em; padding-bottom: 0.298em;">O</span></span></span><span class="mjx-sub" style="font-size: 70.7%; vertical-align: -0.212em; padding-right: 0.071em;"><span class="mjx-mn" style=""><span class="mjx-char MJXc-TeX-main-R" style="padding-top: 0.372em; padding-bottom: 0.372em;">2</span></span></span></span></span></span></span></span>-C uptake from the atmosphere.</p> <figure itemscope="" itemtype="http://schema.stenci.la/Figure" id="fig1" title="Figure 1"> <label data-itemprop="label">Figure 1</label> <stencila-code-chunk itemscope="" itemtype="http://schema.stenci.la/CodeChunk" data-programminglanguage="r"> <pre class="language-r" itemscope="" itemtype="http://schema.stenci.la/CodeBlock" slot="text"><code># written with R version 4.0.2 (2020-06-22) -- "Taking Off Again" ##------ Tue Oct 13 11:53:48 2020 ------## # by Norman Gentsch library(tidyverse) library(lme4) library(emmeans) library(multcomp) # set theme for ggplot theme_set(theme_bw()) theme_myBW <- theme(axis.title.x = element_text(size = 10, color = "black"), axis.title.y = element_text(angle = 90, vjust = 1.5, size = 10, color = "black"), axis.text.x = element_text(size = 7, color = "black"), axis.text.y = element_text(size = 10, color = "black"), axis.ticks =element_line(colour="black"), strip.text.x = element_text(size = 10, color = "black"), strip.background = element_blank(), panel.border =element_rect(colour="black", fill=NA), panel.grid.major = element_blank(), panel.grid.minor = element_blank(), plot.title = element_text(size = 12, hjust=0.5), #legend.position=c(0.0,1.0), #legend.justification=c(0,1), legend.text = element_text(size = 10), legend.text.align=0, legend.title = element_text(size = 10), legend.key = element_rect(colour="white", fill = "white"), legend.key.size = unit(5, "mm"), legend.background = element_blank()) # set vector with colors and label COL <- c("Fallow" = "slategray", "Mustard" = "red3" , "Mix4" = "orchid3", "Mix12"= "orange4") SHP <- c("Fallow"=21,"Mustard"=22,"Mix4"=23, "Mix12"=24) data <- read.csv2("data.csv", as.is=T) data$cc_variant <- factor(data$cc_variant, levels = c("Fallow", "Mustard", "Mix4", "Mix12")) data$NEE <- as.numeric(data$NEE) lm_NEE <- lmer(NEE ~ cc_variant + (1|Date), data=data) df_NEE <- cld(emmeans(lm_NEE, specs ="cc_variant"), Letters=letters, sort=FALSE) #Compute Position Pos <- aggregate(NEE~cc_variant,data,min) # summary table for sum.lm <- glht(lm_NEE, linfct = mcp(cc_variant = "Tukey")) #summary(sum.lm)$test$pvalue glht.table <- function(x) { pq <- summary(x)$test mtests <- cbind(pq$coefficients, pq$sigma, pq$tstat, pq$pvalues) colnames(mtests) <- c("Estimate", "Std Error", "z value", "p value") return(mtests) } df.summary <- data.frame(glht.table(sum.lm)) #df.summary abc <- subset (df.summary, p.value<0.01) maxValue <- max(abc$p.value) p <- round(maxValue + 5*10^(-3), 2) colMax <- function(data) sapply(data, max, na.rm = TRUE) # Plot for BFS ggplot(data, aes(x= cc_variant, y=NEE, fill= cc_variant))+ geom_boxplot()+ scale_fill_manual(values = COL, guide=FALSE)+ geom_text(data= merge(df_NEE,Pos) , aes(y=NEE-10,x=cc_variant, label=.group))+ labs(x="Catch crop variant", y=expression("NEE (mg CO"[2]~"- C"~m^{-2}~h^{-1}~")"), fill="")+ theme_myBW+scale_x_discrete(limits=c("Fallow", "Mustard", "Mix4", "Mix12")) #ggsave("Fig1.png", width = 84, height = 70, units = "mm", dpi = 600) #summary(lm_NEE) </code></pre> </stencila-code-chunk> <figcaption> <h3 itemscope="" itemtype="http://schema.stenci.la/Heading" id="net-ecosystem-exchange-nee-of-c-between-catch-crop-treatments-bars-represent-means-±-se-lowercase-letters-denote-significant-differences-p--p-r-between-treatments"> Net ecosystem exchange (NEE) of C between catch crop treatments. Bars represent means ± SE; lowercase letters denote significant differences (p < <stencila-code-expression programming-language="r" itemscope="" itemtype="http://schema.stenci.la/CodeExpression"><code class="r" slot="text">p</code><output slot="output"></output></stencila-code-expression>) between treatments</h3> </figcaption> </figure> <h3 itemscope="" itemtype="http://schema.stenci.la/Heading" id="discussion">Discussion</h3> <h4 itemscope="" itemtype="http://schema.stenci.la/Heading" id="nee-is-linked-to-plant-diversity">NEE is linked to plant diversity</h4> <p itemscope="" itemtype="http://schema.stenci.la/Paragraph"><a href="" itemscope="" itemtype="http://schema.stenci.la/Link">...</a> The NEE in our study showed a remarkably strong negative gradient from mustard to mix 4 to mix 12 (<a href="#fig1" itemscope="" itemtype="http://schema.stenci.la/Link">Fig. 1</a>), which suggested higher photosynthetic <span itemscope="" itemtype="http://schema.stenci.la/MathFragment"><span class="mjx-chtml"><span class="mjx-math" aria-label="CO_2"><span class="mjx-mrow" aria-hidden="true"><span class="mjx-mi"><span class="mjx-char MJXc-TeX-math-I" style="padding-top: 0.519em; padding-bottom: 0.298em; padding-right: 0.045em;">C</span></span><span class="mjx-msubsup"><span class="mjx-base"><span class="mjx-mi"><span class="mjx-char MJXc-TeX-math-I" style="padding-top: 0.519em; padding-bottom: 0.298em;">O</span></span></span><span class="mjx-sub" style="font-size: 70.7%; vertical-align: -0.212em; padding-right: 0.071em;"><span class="mjx-mn" style=""><span class="mjx-char MJXc-TeX-main-R" style="padding-top: 0.372em; padding-bottom: 0.372em;">2</span></span></span></span></span></span></span></span>-C fixation rates with increasing catch crop diversity.</p> </article> </main> </body> </html>